locus-tag	class	description
YALI2_A00001g	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
YALI2_A00007g	COG0536	An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control
YALI2_A00020g	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
YALI2_A00026g	COG0596	Alpha beta hydrolase
YALI2_A00031g	COG0037	tRNA processing
YALI2_A00035g	COG2814	Major facilitator Superfamily
YALI2_A00042g	COG0004	ammonium transporteR
YALI2_A00073g	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
YALI2_A00087g	COG0513	Belongs to the DEAD box helicase family
YALI2_A00093g	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
YALI2_A00127g	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
YALI2_A00134g	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
YALI2_A00136g	COG2814	Major facilitator Superfamily
YALI2_A00139g	COG0441	Catalyzes the attachment of threonine to tRNA(Thr) in a two-step reaction L-threonine is first activated by ATP to form Thr-AMP and then transferred to the acceptor end of tRNA(Thr)
YALI2_A00151g	COG1635	Involved in the biosynthesis of the thiazole moiety of thiamine. Catalyzes the conversion of NAD and glycine to adenosine diphosphate 5-(2-hydroxyethyl)-4-methylthiazole-2-carboxylate (ADT), an adenylated thiazole intermediate, using free sulfide as a source of sulfur
YALI2_A00154g	COG1003	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
YALI2_A00154g	COG0403	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
YALI2_A00156g	COG0339	signal peptide processing
YALI2_A00163g	COG2937	Belongs to the GPAT DAPAT family
YALI2_A00177g	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
YALI2_A00179g	COG2814	Major facilitator Superfamily
YALI2_A00197g	COG0328	RNA-DNA hybrid ribonuclease activity
YALI2_A00210g	COG0367	asparagine synthase
YALI2_A00220g	COG2814	Major facilitator Superfamily
YALI2_A00231g	COG0612	Peptidase, M16
YALI2_A00232g	COG2815	serine threonine protein kinase
YALI2_A00232g	COG0515	serine threonine protein kinase
YALI2_A00238g	COG0318	PFAM AMP-dependent synthetase and ligase
YALI2_A00239g	COG0477	Major facilitator Superfamily
YALI2_A00249g	COG0656	L-ascorbic acid biosynthetic process
YALI2_A00250g	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
YALI2_A00271g	COG1122	ATPase activity
YALI2_A00292g	COG3777	bacterial-type RNA polymerase transcription factor activity, metal ion regulated sequence-specific DNA binding
YALI2_A00296g	COG0004	ammonium transporteR
YALI2_A00307g	COG3920	Histidine kinase
YALI2_A00312g	COG2267	carboxylic ester hydrolase activity
YALI2_A00320g	COG0438	transferase activity, transferring glycosyl groups
YALI2_A00329g	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
YALI2_A00336g	COG1335	isochorismatase
YALI2_A00342g	COG2175	clavaminate synthase activity
YALI2_A00346g	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
YALI2_A00347g	COG0443	Heat shock 70 kDa protein
YALI2_A00351g	COG0477	Major facilitator Superfamily
YALI2_A00367g	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
YALI2_A00374g	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
YALI2_A00387g	COG0531	amino acid
YALI2_A00388g	COG1028	Short-chain dehydrogenase reductase Sdr
YALI2_A00390g	COG1012	belongs to the aldehyde dehydrogenase family
YALI2_A00391g	COG0450	alkyl hydroperoxide reductase
YALI2_A00401g	COG2814	Major facilitator Superfamily
YALI2_A00421g	COG0484	heat shock protein binding
YALI2_A00428g	COG2814	Major facilitator Superfamily
YALI2_A00434g	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
YALI2_A00436g	COG1073	alpha beta
YALI2_A00466g	COG2814	Major facilitator Superfamily
YALI2_A00476g	COG0328	RNA-DNA hybrid ribonuclease activity
YALI2_A00500g	COG0328	RNA-DNA hybrid ribonuclease activity
YALI2_A00502g	COG2175	clavaminate synthase activity
YALI2_A00539g	COG0285	dihydrofolate synthase activity
YALI2_A00540g	COG5285	phytanoyl-CoA dioxygenase
YALI2_A00546g	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
YALI2_A00555g	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
YALI2_A00574g	COG0477	Major facilitator Superfamily
YALI2_A00586g	COG0625	glutathione transferase activity
YALI2_A00589g	COG4178	(ABC) transporter
YALI2_A00605g	COG0147	Part of a heterotetrameric complex that catalyzes the two-step biosynthesis of anthranilate, an intermediate in the biosynthesis of L-tryptophan. In the first step, the glutamine- binding beta subunit (TrpG) of anthranilate synthase (AS) provides the glutamine amidotransferase activity which generates ammonia as a substrate that, along with chorismate, is used in the second step, catalyzed by the large alpha subunit of AS (TrpE) to produce anthranilate. In the absence of TrpG, TrpE can synthesize anthranilate directly from chorismate and high concentrations of ammonia
YALI2_A00605g	COG0512	Glutamine amidotransferase of anthranilate synthase
YALI2_A00606g	COG0515	serine threonine protein kinase
YALI2_A00629g	COG0724	RNA recognition motif
YALI2_A00633g	COG0724	RNA recognition motif
YALI2_A00650g	COG0294	Catalyzes the condensation of para-aminobenzoate (pABA) with 6-hydroxymethyl-7,8-dihydropterin diphosphate (DHPt-PP) to form 7,8-dihydropteroate (H2Pte), the immediate precursor of folate derivatives
YALI2_A00664g	COG1902	pentaerythritol trinitrate reductase activity
YALI2_A00671g	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
YALI2_A00671g	COG1648	precorrin-2 dehydrogenase activity
YALI2_A00678g	COG0532	One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
YALI2_A00691g	COG0060	amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile)
YALI2_B00020g	COG1012	belongs to the aldehyde dehydrogenase family
YALI2_B00028g	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
YALI2_B00033g	COG2124	cytochrome p450
YALI2_B00033g	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
YALI2_B00046g	COG0465	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins
YALI2_B00049g	COG2217	Heavy metal translocating P-type atpase
YALI2_B00050g	COG0588	phosphoglycerate mutase activity
YALI2_B00053g	COG2815	serine threonine protein kinase
YALI2_B00053g	COG0515	serine threonine protein kinase
YALI2_B00078g	COG1219	ATP-dependent specificity component of the Clp protease. It directs the protease to specific substrates. Can perform chaperone functions in the absence of ClpP
YALI2_B00084g	COG0488	(ABC) transporter
YALI2_B00107g	COG0648	Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin
YALI2_B00123g	COG0656	L-ascorbic acid biosynthetic process
YALI2_B00152g	COG2226	methyltransferase
YALI2_B00162g	COG0515	serine threonine protein kinase
YALI2_B00164g	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
YALI2_B00179g	COG0477	Major facilitator Superfamily
YALI2_B00181g	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
YALI2_B00189g	COG1866	Involved in the gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA
YALI2_B00195g	COG0833	amino acid
YALI2_B00196g	COG2271	Major facilitator Superfamily
YALI2_B00206g	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
YALI2_B00212g	COG0180	Tryptophanyl-tRNA synthetase
YALI2_B00215g	COG0576	Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ
YALI2_B00216g	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
YALI2_B00235g	COG0655	NAD(P)H dehydrogenase (quinone) activity
YALI2_B00252g	COG0405	Gamma-glutamyltransferase
YALI2_B00259g	COG0625	glutathione transferase activity
YALI2_B00268g	COG1017	nitric oxide dioxygenase activity
YALI2_B00268g	COG1018	Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress
YALI2_B00275g	COG0417	DNA replication proofreading
YALI2_B00276g	COG0515	serine threonine protein kinase
YALI2_B00276g	COG2815	serine threonine protein kinase
YALI2_B00280g	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
YALI2_B00303g	COG0596	Alpha beta hydrolase
YALI2_B00310g	COG0842	Transport permease protein
YALI2_B00310g	COG1131	(ABC) transporter
YALI2_B00310g	COG1716	ATPase activity
YALI2_B00322g	COG0218	Necessary for normal cell division and for the maintenance of normal septation
YALI2_B00329g	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
YALI2_B00340g	COG3064	Membrane
YALI2_B00340g	COG0515	serine threonine protein kinase
YALI2_B00340g	COG4991	sh3 domain protein
YALI2_B00357g	COG1331	Highly conserved protein containing a thioredoxin domain
YALI2_B00364g	COG0179	Fumarylacetoacetate (FAA) hydrolase
YALI2_B00366g	COG0846	NAD-dependent lysine deacetylase and desuccinylase that specifically removes acetyl and succinyl groups on target proteins. Modulates the activities of several proteins which are inactive in their acylated form
YALI2_B00384g	COG0626	cystathionine gamma-synthase activity
YALI2_B00388g	COG1160	GTP binding
YALI2_B00398g	COG0513	Belongs to the DEAD box helicase family
YALI2_B00406g	COG0459	protein refolding
YALI2_B00428g	COG0655	NAD(P)H dehydrogenase (quinone) activity
YALI2_B00444g	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
YALI2_B00447g	COG1230	cation diffusion facilitator family transporter
YALI2_B00465g	COG2271	Major facilitator Superfamily
YALI2_B00475g	COG0076	glutamate decarboxylase activity
YALI2_B00477g	COG0515	serine threonine protein kinase
YALI2_B00477g	COG2815	serine threonine protein kinase
YALI2_B00490g	COG4146	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
YALI2_B00493g	COG2145	Catalyzes the phosphorylation of the hydroxyl group of 4-methyl-5-beta-hydroxyethylthiazole (THZ)
YALI2_B00504g	COG0557	exoribonuclease II activity
YALI2_B00512g	COG0220	tRNA (guanine-N7-)-methyltransferase activity
YALI2_B00521g	COG2828	Protein conserved in bacteria
YALI2_B00532g	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
YALI2_B00535g	COG0153	Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P)
YALI2_B00541g	COG0101	tRNA pseudouridine synthase activity
YALI2_B00543g	COG0667	Aldo Keto reductase
YALI2_B00553g	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
YALI2_B00553g	COG2124	cytochrome p450
YALI2_B00559g	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
YALI2_B00579g	COG0013	Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction alanine is first activated by ATP to form Ala- AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain
YALI2_B00581g	COG1058	Belongs to the CinA family
YALI2_B00581g	COG1546	Belongs to the CinA family
YALI2_B00588g	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
YALI2_B00594g	COG0300	oxidoreductase activity
YALI2_B00600g	COG2814	Major facilitator Superfamily
YALI2_B00628g	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
YALI2_B00629g	COG0477	Major facilitator Superfamily
YALI2_B00629g	COG2814	Major facilitator Superfamily
YALI2_B00630g	COG0564	pseudouridine synthase activity
YALI2_B00636g	COG0536	An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control
YALI2_B00643g	COG1247	-acetyltransferase
YALI2_B00651g	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
YALI2_C00001g	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
YALI2_C00008g	COG0473	3-isopropylmalate dehydrogenase activity
YALI2_C00028g	COG1859	Removes the 2'-phosphate from RNA via an intermediate in which the phosphate is ADP-ribosylated by NAD followed by a presumed transesterification to release the RNA and generate ADP- ribose 1''-2''-cyclic phosphate (APPR P). May function as an ADP- ribosylase
YALI2_C00032g	COG0363	glucosamine-6-phosphate deaminase activity
YALI2_C00043g	COG2814	Major facilitator Superfamily
YALI2_C00057g	COG0012	GTP binding
YALI2_C00061g	COG0008	Catalyzes the attachment of glutamate to tRNA(Glu) in a two-step reaction glutamate is first activated by ATP to form Glu-AMP and then transferred to the acceptor end of tRNA(Glu)
YALI2_C00074g	COG1914	H( )-stimulated, divalent metal cation uptake system
YALI2_C00079g	COG0477	Major facilitator Superfamily
YALI2_C00080g	COG0477	Major facilitator Superfamily
YALI2_C00084g	COG0040	Catalyzes the condensation of ATP and 5-phosphoribose 1- diphosphate to form N'-(5'-phosphoribosyl)-ATP (PR-ATP). Has a crucial role in the pathway because the rate of histidine biosynthesis seems to be controlled primarily by regulation of hisG enzymatic activity
YALI2_C00092g	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
YALI2_C00095g	COG0484	heat shock protein binding
YALI2_C00097g	COG0318	PFAM AMP-dependent synthetase and ligase
YALI2_C00101g	COG0123	including yeast histone deacetylase and acetoin utilization protein
YALI2_C00105g	COG2130	NADP-dependent
YALI2_C00111g	COG2814	Major facilitator Superfamily
YALI2_C00122g	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
YALI2_C00124g	COG0107	imidazoleglycerol-phosphate synthase activity
YALI2_C00129g	COG2119	membrane
YALI2_C00130g	COG2267	carboxylic ester hydrolase activity
YALI2_C00138g	COG0326	Molecular chaperone. Has ATPase activity
YALI2_C00146g	COG0515	serine threonine protein kinase
YALI2_C00146g	COG2815	serine threonine protein kinase
YALI2_C00177g	COG2124	cytochrome p450
YALI2_C00177g	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
YALI2_C00186g	COG2271	Major facilitator Superfamily
YALI2_C00190g	COG2169	Transcriptional regulator
YALI2_C00190g	COG0350	Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction the enzyme is irreversibly inactivated
YALI2_C00199g	COG1362	aminopeptidase activity
YALI2_C00205g	COG0207	Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor and reductant in the reaction, yielding dihydrofolate (DHF) as a by-product. This enzymatic reaction provides an intracellular de novo source of dTMP, an essential precursor for DNA biosynthesis
YALI2_C00207g	COG0515	serine threonine protein kinase
YALI2_C00221g	COG2124	cytochrome p450
YALI2_C00236g	COG0172	Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L-seryl-tRNA(Sec), which will be further converted into selenocysteinyl-tRNA(Sec)
YALI2_C00242g	COG2124	cytochrome p450
YALI2_C00242g	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
YALI2_C00244g	COG1902	pentaerythritol trinitrate reductase activity
YALI2_C00259g	COG0656	L-ascorbic acid biosynthetic process
YALI2_C00270g	COG0135	phosphoribosylanthranilate isomerase activity
YALI2_C00272g	COG0318	PFAM AMP-dependent synthetase and ligase
YALI2_C00282g	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
YALI2_C00295g	COG0162	Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction tyrosine is first activated by ATP to form Tyr- AMP and then transferred to the acceptor end of tRNA(Tyr)
YALI2_C00300g	COG0387	Pfam Sodium calcium exchanger
YALI2_C00306g	COG0330	HflC and HflK could
YALI2_C00310g	COG1012	belongs to the aldehyde dehydrogenase family
YALI2_C00317g	COG2070	2-Nitropropane dioxygenase
YALI2_C00325g	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
YALI2_C00333g	COG0522	One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit
YALI2_C00368g	COG1132	(ABC) transporter
YALI2_C00373g	COG0443	Heat shock 70 kDa protein
YALI2_C00385g	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
YALI2_C00388g	COG0515	serine threonine protein kinase
YALI2_C00388g	COG2815	serine threonine protein kinase
YALI2_C00396g	COG0462	Involved in the biosynthesis of the central metabolite phospho-alpha-D-ribosyl-1-pyrophosphate (PRPP) via the transfer of pyrophosphoryl group from ATP to 1-hydroxyl of ribose-5-phosphate (Rib-5-P)
YALI2_C00401g	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
YALI2_C00401g	COG2124	cytochrome p450
YALI2_C00409g	COG0515	serine threonine protein kinase
YALI2_C00412g	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
YALI2_C00430g	COG0638	Catalyzes the covalent attachment of the prokaryotic ubiquitin-like protein modifier Pup to the proteasomal substrate proteins, thereby targeting them for proteasomal degradation. This tagging system is termed pupylation. The ligation reaction involves the side-chain carboxylate of the C-terminal glutamate of Pup and the side-chain amino group of a substrate lysine
YALI2_C00448g	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
YALI2_C00454g	COG1028	Short-chain dehydrogenase reductase Sdr
YALI2_C00456g	COG0465	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins
YALI2_C00459g	COG0833	amino acid
YALI2_C00484g	COG0077	Prephenate dehydratase
YALI2_C00484g	COG1605	Chorismate mutase
YALI2_C00511g	COG0486	Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34
YALI2_C00519g	COG2271	Major facilitator Superfamily
YALI2_C00523g	COG0833	amino acid
YALI2_C00527g	COG2271	Major facilitator Superfamily
YALI2_C00528g	COG0833	amino acid
YALI2_C00560g	COG2814	Major facilitator Superfamily
YALI2_C00584g	COG3200	phospho-2-dehydro-3-deoxyheptonate aldolase
YALI2_C00602g	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
YALI2_C00616g	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
YALI2_C00627g	COG0513	Belongs to the DEAD box helicase family
YALI2_C00637g	COG0532	One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
YALI2_C00641g	COG0656	L-ascorbic acid biosynthetic process
YALI2_C00643g	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
YALI2_C00646g	COG0513	Belongs to the DEAD box helicase family
YALI2_C00647g	COG0042	Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines
YALI2_C00648g	COG2175	clavaminate synthase activity
YALI2_C00655g	COG2814	Major facilitator Superfamily
YALI2_C00672g	COG0435	Glutathione S-transferase
YALI2_C00673g	COG0006	proline dipeptidase activity
YALI2_C00681g	COG0833	amino acid
YALI2_C00691g	COG0220	tRNA (guanine-N7-)-methyltransferase activity
YALI2_C00692g	COG1404	Belongs to the peptidase S8 family
YALI2_C00702g	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
YALI2_C00710g	COG0489	protein tyrosine kinase activity
YALI2_C00716g	COG1482	cell wall glycoprotein biosynthetic process
YALI2_C00717g	COG0343	queuine tRNA-ribosyltransferase activity
YALI2_C00727g	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
YALI2_C00733g	COG2890	protein-(glutamine-N5) methyltransferase activity
YALI2_C00742g	COG2814	Major facilitator Superfamily
YALI2_C00745g	COG0513	Belongs to the DEAD box helicase family
YALI2_C00765g	COG0596	Alpha beta hydrolase
YALI2_C00766g	COG2815	serine threonine protein kinase
YALI2_C00766g	COG0515	serine threonine protein kinase
YALI2_C00769g	COG1643	Atp-dependent helicase
YALI2_C00786g	COG1444	tRNA N-acetyltransferase activity
YALI2_C00796g	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
YALI2_C00799g	COG1472	Belongs to the glycosyl hydrolase 3 family
YALI2_C00800g	COG1472	Belongs to the glycosyl hydrolase 3 family
YALI2_C00808g	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
YALI2_C00812g	COG0004	ammonium transporteR
YALI2_C00848g	COG1643	Atp-dependent helicase
YALI2_C00855g	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
YALI2_C00857g	COG0598	Magnesium transport protein CorA
YALI2_C00862g	COG1643	Atp-dependent helicase
YALI2_C00897g	COG1058	Belongs to the CinA family
YALI2_C00897g	COG1546	Belongs to the CinA family
YALI2_C00903g	COG1643	Atp-dependent helicase
YALI2_C00907g	COG0443	Heat shock 70 kDa protein
YALI2_C00914g	COG2814	Major facilitator Superfamily
YALI2_C00921g	COG0529	Catalyzes the synthesis of activated sulfate
YALI2_C00921g	COG2046	Belongs to the sulfate adenylyltransferase family
YALI2_C00931g	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
YALI2_C00940g	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
YALI2_C00950g	COG2814	Major facilitator Superfamily
YALI2_C00954g	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
YALI2_C00957g	COG4702	Belongs to the UPF0303 family
YALI2_C00959g	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
YALI2_C00966g	COG0318	PFAM AMP-dependent synthetase and ligase
YALI2_C00969g	COG0670	Belongs to the BI1 family
YALI2_C00986g	COG0060	amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile)
YALI2_C00998g	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
YALI2_C00998g	COG2124	cytochrome p450
YALI2_C01001g	COG0833	amino acid
YALI2_C01016g	COG0656	L-ascorbic acid biosynthetic process
YALI2_C01019g	COG2814	Major facilitator Superfamily
YALI2_C01046g	COG0833	amino acid
YALI2_C01047g	COG0798	PFAM Bile acid sodium symporter
YALI2_C01048g	COG0798	PFAM Bile acid sodium symporter
YALI2_C01052g	COG4221	oxidoreductase activity
YALI2_C01061g	COG0296	Catalyzes the formation of the alpha-1,6-glucosidic linkages in glycogen by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position
YALI2_C01065g	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
YALI2_C01073g	COG1418	mRNA catabolic process
YALI2_C01075g	COG0452	Catalyzes two steps in the biosynthesis of coenzyme A. In the first step cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, in the latter compound is decarboxylated to form 4'-phosphopantotheine
YALI2_C01095g	COG0513	Belongs to the DEAD box helicase family
YALI2_C01099g	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
YALI2_C01104g	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
YALI2_C01112g	COG2814	Major facilitator Superfamily
YALI2_C01132g	COG0095	Lipoate-protein ligase
YALI2_C01141g	COG0516	GMP reductase activity
YALI2_C01141g	COG0517	IMP dehydrogenase activity
YALI2_C01147g	COG0625	glutathione transferase activity
YALI2_C01148g	COG1012	belongs to the aldehyde dehydrogenase family
YALI2_C01165g	COG1643	Atp-dependent helicase
YALI2_C01167g	COG2226	methyltransferase
YALI2_C01204g	COG0833	amino acid
YALI2_C01206g	COG0656	L-ascorbic acid biosynthetic process
YALI2_C01211g	COG2271	Major facilitator Superfamily
YALI2_D00001g	COG2814	Major facilitator Superfamily
YALI2_D00009g	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
YALI2_D00013g	COG0436	Aminotransferase
YALI2_D00024g	COG1902	pentaerythritol trinitrate reductase activity
YALI2_D00035g	COG0585	pseudouridine synthase activity
YALI2_D00043g	COG2815	serine threonine protein kinase
YALI2_D00043g	COG0515	serine threonine protein kinase
YALI2_D00044g	COG0846	NAD-dependent lysine deacetylase and desuccinylase that specifically removes acetyl and succinyl groups on target proteins. Modulates the activities of several proteins which are inactive in their acylated form
YALI2_D00045g	COG0604	alcohol dehydrogenase
YALI2_D00053g	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
YALI2_D00072g	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
YALI2_D00080g	COG0656	L-ascorbic acid biosynthetic process
YALI2_D00082g	COG0692	Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine
YALI2_D00096g	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
YALI2_D00100g	COG0024	Methionine aminopeptidase
YALI2_D00120g	COG0436	Aminotransferase
YALI2_D00133g	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
YALI2_D00138g	COG0672	)-iron permease
YALI2_D00139g	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
YALI2_D00150g	COG1012	belongs to the aldehyde dehydrogenase family
YALI2_D00160g	COG0049	tRNA binding
YALI2_D00178g	COG0588	phosphoglycerate mutase activity
YALI2_D00180g	COG0833	amino acid
YALI2_D00185g	COG0513	Belongs to the DEAD box helicase family
YALI2_D00195g	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
YALI2_D00201g	COG3961	Belongs to the TPP enzyme family
YALI2_D00290g	COG0380	Probably involved in the osmoprotection via the biosynthesis of trehalose. Catalyzes the transfer of glucose from UDP-glucose (UDP-Glc) to D-glucose 6-phosphate (Glc-6-P) to form trehalose-6-phosphate. Acts with retention of the anomeric configuration of the UDP-sugar donor
YALI2_D00295g	COG1028	Short-chain dehydrogenase reductase Sdr
YALI2_D00304g	COG1069	ribulokinase activity
YALI2_D00306g	COG0215	cysteine-tRNA ligase activity
YALI2_D00308g	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
YALI2_D00311g	COG0442	prolyl-tRNA aminoacylation
YALI2_D00312g	COG0612	Peptidase, M16
YALI2_D00314g	COG0354	folic acid binding
YALI2_D00323g	COG0205	6-phosphofructokinase activity
YALI2_D00334g	COG4229	Bifunctional enzyme that catalyzes the enolization of 2,3-diketo-5-methylthiopentyl-1-phosphate (DK-MTP-1-P) into the intermediate 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate (HK-MTPenyl-1-P), which is then dephosphorylated to form the acireductone 1,2-dihydroxy-3-keto-5-methylthiopentene (DHK- MTPene)
YALI2_D00358g	COG2175	clavaminate synthase activity
YALI2_D00360g	COG0531	amino acid
YALI2_D00393g	COG2814	Major facilitator Superfamily
YALI2_D00394g	COG0167	dihydroorotate dehydrogenase activity
YALI2_D00400g	COG2225	Involved in the glycolate utilization. Catalyzes the condensation and subsequent hydrolysis of acetyl-coenzyme A (acetyl-CoA) and glyoxylate to form malate and CoA
YALI2_D00422g	COG2814	Major facilitator Superfamily
YALI2_D00442g	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
YALI2_D00445g	COG2175	clavaminate synthase activity
YALI2_D00461g	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
YALI2_D00465g	COG0017	Asparaginyl-tRNA synthetase
YALI2_D00476g	COG2815	serine threonine protein kinase
YALI2_D00476g	COG0515	serine threonine protein kinase
YALI2_D00479g	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
YALI2_D00507g	COG0187	DNA topoisomerase II activity
YALI2_D00518g	COG0138	bifunctional purine biosynthesis protein purh
YALI2_D00536g	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
YALI2_D00538g	COG0376	Bifunctional enzyme with both catalase and broad- spectrum peroxidase activity
YALI2_D00546g	COG0842	Transport permease protein
YALI2_D00546g	COG1131	(ABC) transporter
YALI2_D00546g	COG1716	ATPase activity
YALI2_D00555g	COG0165	Argininosuccinate lyase
YALI2_D00567g	COG2217	Heavy metal translocating P-type atpase
YALI2_D00580g	COG0391	Required for morphogenesis under gluconeogenic growth conditions
YALI2_D00583g	COG3508	Involved in the catabolism of homogentisate (2,5- dihydroxyphenylacetate or 2,5-OH-PhAc), a central intermediate in the degradation of phenylalanine and tyrosine. Catalyzes the oxidative ring cleavage of the aromatic ring of homogentisate to yield maleylacetoacetate
YALI2_D00585g	COG0443	Heat shock 70 kDa protein
YALI2_D00586g	COG0179	Fumarylacetoacetate (FAA) hydrolase
YALI2_D00601g	COG0534	Mate efflux family protein
YALI2_D00637g	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
YALI2_D00638g	COG0515	serine threonine protein kinase
YALI2_D00638g	COG2815	serine threonine protein kinase
YALI2_D00652g	COG2814	Major facilitator Superfamily
YALI2_D00654g	COG0513	Belongs to the DEAD box helicase family
YALI2_D00661g	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
YALI2_D00680g	COG0513	Belongs to the DEAD box helicase family
YALI2_D00685g	COG2814	Major facilitator Superfamily
YALI2_D00700g	COG0154	amidase activity
YALI2_D00711g	COG0688	phosphatidylethanolamine metabolic process
YALI2_D00749g	COG3104	oligopeptide transport
YALI2_D00775g	COG0082	Catalyzes the anti-1,4-elimination of the C-3 phosphate and the C-6 proR hydrogen from 5-enolpyruvylshikimate-3-phosphate (EPSP) to yield chorismate, which is the branch point compound that serves as the starting substrate for the three terminal pathways of aromatic amino acid biosynthesis. This reaction introduces a second double bond into the aromatic ring system
YALI2_D00781g	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
YALI2_D00789g	COG0142	geranyltranstransferase activity
YALI2_D00802g	COG0481	GTPase activity
YALI2_D00803g	COG1902	pentaerythritol trinitrate reductase activity
YALI2_D00814g	COG0833	amino acid
YALI2_D00827g	COG0515	serine threonine protein kinase
YALI2_D00827g	COG2815	serine threonine protein kinase
YALI2_D00828g	COG0745	RESPONSE REGULATOR receiver
YALI2_D00853g	COG1028	Short-chain dehydrogenase reductase Sdr
YALI2_D00858g	COG0081	regulation of translation
YALI2_D00878g	COG0465	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins
YALI2_D00879g	COG0460	homoserine dehydrogenase
YALI2_D00879g	COG0527	aspartate kinase activity
YALI2_D00886g	COG0465	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins
YALI2_D00895g	COG0512	Glutamine amidotransferase of anthranilate synthase
YALI2_D00898g	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
YALI2_D00915g	COG1643	Atp-dependent helicase
YALI2_D00921g	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
YALI2_D00925g	COG0293	Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit
YALI2_D00926g	COG0465	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins
YALI2_D00944g	COG0596	Alpha beta hydrolase
YALI2_D00949g	COG0443	Heat shock 70 kDa protein
YALI2_D00981g	COG3961	Belongs to the TPP enzyme family
YALI2_D01012g	COG1953	Uracil, thiamine, allantoin
YALI2_D01016g	COG1034	ATP synthesis coupled electron transport
YALI2_D01019g	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
YALI2_D01034g	COG0536	An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control
YALI2_D01045g	COG4178	(ABC) transporter
YALI2_D01060g	COG0465	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins
YALI2_D01065g	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
YALI2_D01065g	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
YALI2_D01067g	COG0059	Involved in the biosynthesis of branched-chain amino acids (BCAA). Catalyzes an alkyl-migration followed by a ketol- acid reduction of (S)-2-acetolactate (S2AL) to yield (R)-2,3- dihydroxy-isovalerate. In the isomerase reaction, S2AL is rearranged via a Mg-dependent methyl migration to produce 3- hydroxy-3-methyl-2-ketobutyrate (HMKB). In the reductase reaction, this 2-ketoacid undergoes a metal-dependent reduction by NADPH to yield (R)-2,3-dihydroxy-isovalerate
YALI2_D01070g	COG0484	heat shock protein binding
YALI2_D01079g	COG1171	Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA
YALI2_D01083g	COG1004	Belongs to the UDP-glucose GDP-mannose dehydrogenase family
YALI2_D01099g	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
YALI2_D01102g	COG0477	Major facilitator Superfamily
YALI2_D01103g	COG0527	aspartate kinase activity
YALI2_D01103g	COG0460	homoserine dehydrogenase
YALI2_D01106g	COG0154	amidase activity
YALI2_D01109g	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
YALI2_D01112g	COG0626	cystathionine gamma-synthase activity
YALI2_D01114g	COG0531	amino acid
YALI2_D01118g	COG2814	Major facilitator Superfamily
YALI2_E00001g	COG0443	Heat shock 70 kDa protein
YALI2_E00006g	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
YALI2_E00008g	COG1012	belongs to the aldehyde dehydrogenase family
YALI2_E00016g	COG2264	protein methyltransferase activity
YALI2_E00040g	COG1161	Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity
YALI2_E00042g	COG0513	Belongs to the DEAD box helicase family
YALI2_E00054g	COG0108	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
YALI2_E00054g	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
YALI2_E00055g	COG0386	Belongs to the glutathione peroxidase family
YALI2_E00084g	COG0557	exoribonuclease II activity
YALI2_E00098g	COG0013	Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction alanine is first activated by ATP to form Ala- AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain
YALI2_E00126g	COG1028	Short-chain dehydrogenase reductase Sdr
YALI2_E00135g	COG0318	PFAM AMP-dependent synthetase and ligase
YALI2_E00136g	COG1132	(ABC) transporter
YALI2_E00143g	COG0452	Catalyzes two steps in the biosynthesis of coenzyme A. In the first step cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, in the latter compound is decarboxylated to form 4'-phosphopantotheine
YALI2_E00149g	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
YALI2_E00149g	COG3270	Specifically methylates the cytosine at position 1407 (m5C1407) of 16S rRNA
YALI2_E00154g	COG0436	Aminotransferase
YALI2_E00155g	COG0157	Belongs to the NadC ModD family
YALI2_E00166g	COG2233	PERMEase
YALI2_E00192g	COG0064	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
YALI2_E00196g	COG0009	L-threonylcarbamoyladenylate synthase
YALI2_E00199g	COG0228	four-way junction DNA binding
YALI2_E00200g	COG0085	RNA polymerase activity
YALI2_E00209g	COG0833	amino acid
YALI2_E00220g	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
YALI2_E00230g	COG2072	flavoprotein involved in K transport
YALI2_E00238g	COG0154	amidase activity
YALI2_E00239g	COG0417	DNA replication proofreading
YALI2_E00242g	COG0318	PFAM AMP-dependent synthetase and ligase
YALI2_E00256g	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
YALI2_E00259g	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
YALI2_E00266g	COG1364	Catalyzes two activities which are involved in the cyclic version of arginine biosynthesis the synthesis of N- acetylglutamate from glutamate and acetyl-CoA as the acetyl donor, and of ornithine by transacetylation between N(2)-acetylornithine and glutamate
YALI2_E00276g	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
YALI2_E00291g	COG2124	cytochrome p450
YALI2_E00299g	COG1048	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate
YALI2_E00310g	COG5002	protein histidine kinase activity
YALI2_E00310g	COG0784	Response regulator, receiver
YALI2_E00310g	COG2198	Histidine kinase
YALI2_E00311g	COG1205	dead DEAH box helicase
YALI2_E00311g	COG1111	helicase
YALI2_E00313g	COG2225	Involved in the glycolate utilization. Catalyzes the condensation and subsequent hydrolysis of acetyl-coenzyme A (acetyl-CoA) and glyoxylate to form malate and CoA
YALI2_E00327g	COG0724	RNA recognition motif
YALI2_E00331g	COG0484	heat shock protein binding
YALI2_E00350g	COG0156	8-amino-7-oxononanoate synthase activity
YALI2_E00359g	COG0008	Catalyzes the attachment of glutamate to tRNA(Glu) in a two-step reaction glutamate is first activated by ATP to form Glu-AMP and then transferred to the acceptor end of tRNA(Glu)
YALI2_E00359g	COG1384	Belongs to the class-I aminoacyl-tRNA synthetase family
YALI2_E00361g	COG0061	Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP
YALI2_E00371g	COG0281	malic enzyme
YALI2_E00384g	COG0006	proline dipeptidase activity
YALI2_E00386g	COG0484	heat shock protein binding
YALI2_E00402g	COG0596	Alpha beta hydrolase
YALI2_E00407g	COG1472	Belongs to the glycosyl hydrolase 3 family
YALI2_E00431g	COG2814	Major facilitator Superfamily
YALI2_E00442g	COG0465	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins
YALI2_E00471g	COG0477	Major facilitator Superfamily
YALI2_E00471g	COG2814	Major facilitator Superfamily
YALI2_E00491g	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
YALI2_E00493g	COG0515	serine threonine protein kinase
YALI2_E00493g	COG2815	serine threonine protein kinase
YALI2_E00496g	COG1028	Short-chain dehydrogenase reductase Sdr
YALI2_E00545g	COG0004	ammonium transporteR
YALI2_E00550g	COG1902	pentaerythritol trinitrate reductase activity
YALI2_E00556g	COG2233	PERMEase
YALI2_E00574g	COG0436	Aminotransferase
YALI2_E00585g	COG0465	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins
YALI2_E00605g	COG1185	polyribonucleotide nucleotidyltransferase activity
YALI2_E00605g	COG0539	negative regulation of cytoplasmic translation
YALI2_E00615g	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
YALI2_E00616g	COG0427	acetyl-CoA hydrolase
YALI2_E00617g	COG0572	uridine kinase
YALI2_E00625g	COG1253	flavin adenine dinucleotide binding
YALI2_E00626g	COG0833	amino acid
YALI2_E00628g	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
YALI2_E00630g	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
YALI2_E00633g	COG0525	valine-tRNA ligase activity
YALI2_E00643g	COG1362	aminopeptidase activity
YALI2_E00646g	COG4581	dead DEAH box helicase
YALI2_E00654g	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
YALI2_E00665g	COG1161	Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity
YALI2_E00675g	COG1024	Enoyl-CoA hydratase
YALI2_E00685g	COG0550	Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone
YALI2_E00698g	COG0515	serine threonine protein kinase
YALI2_E00704g	COG0109	protoheme IX farnesyltransferase activity
YALI2_E00711g	COG0335	large ribosomal subunit rRNA binding
YALI2_E00722g	COG1063	alcohol dehydrogenase
YALI2_E00747g	COG0466	ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner
YALI2_E00748g	COG1012	belongs to the aldehyde dehydrogenase family
YALI2_E00749g	COG1741	Belongs to the pirin family
YALI2_E00753g	COG0173	Aspartyl-tRNA synthetase with relaxed tRNA specificity since it is able to aspartylate not only its cognate tRNA(Asp) but also tRNA(Asn). Reaction proceeds in two steps L-aspartate is first activated by ATP to form Asp-AMP and then transferred to the acceptor end of tRNA(Asp Asn)
YALI2_E00755g	COG0563	adenylate kinase activity
YALI2_E00782g	COG0483	inositol monophosphate 1-phosphatase activity
YALI2_E00789g	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
YALI2_E00808g	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
YALI2_E00814g	COG3118	belongs to the thioredoxin family
YALI2_E00830g	COG0005	The purine nucleoside phosphorylases catalyze the phosphorolytic breakdown of the N-glycosidic bond in the beta- (deoxy)ribonucleoside molecules, with the formation of the corresponding free purine bases and pentose-1-phosphate
YALI2_E00840g	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
YALI2_E00847g	COG0119	Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate)
YALI2_E00853g	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
YALI2_E00858g	COG0513	Belongs to the DEAD box helicase family
YALI2_E00863g	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
YALI2_E00863g	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
YALI2_E00865g	COG2224	Isocitrate lyase
YALI2_E00876g	COG3153	acetyltransferase
YALI2_E00894g	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
YALI2_E00903g	COG2759	Belongs to the formate--tetrahydrofolate ligase family
YALI2_E00907g	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
YALI2_E00926g	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
YALI2_E00926g	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
YALI2_E00932g	COG0042	Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines
YALI2_E00942g	COG0513	Belongs to the DEAD box helicase family
YALI2_E00959g	COG5277	cytoskeleton organization
YALI2_E00968g	COG2815	serine threonine protein kinase
YALI2_E00968g	COG0515	serine threonine protein kinase
YALI2_E00976g	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
YALI2_E00977g	COG0328	RNA-DNA hybrid ribonuclease activity
YALI2_E00994g	COG2040	homocysteine
YALI2_E00996g	COG0625	glutathione transferase activity
YALI2_E00997g	COG2814	Major facilitator Superfamily
YALI2_E01010g	COG0133	tryptophan synthase activity
YALI2_E01016g	COG1612	heme a metabolic process
YALI2_E01034g	COG1085	galactose-1-phosphate uridylyltransferase
YALI2_E01038g	COG1012	belongs to the aldehyde dehydrogenase family
YALI2_E01040g	COG1960	acyl-CoA dehydrogenase activity
YALI2_E01043g	COG1902	pentaerythritol trinitrate reductase activity
YALI2_E01047g	COG2897	thiosulfate sulfurtransferase activity
YALI2_E01050g	COG0154	amidase activity
YALI2_E01051g	COG0541	Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY
YALI2_E01054g	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
YALI2_E01063g	COG2175	clavaminate synthase activity
YALI2_E01086g	COG0288	reversible hydration of carbon dioxide
YALI2_E01096g	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
YALI2_E01097g	COG0339	signal peptide processing
YALI2_E01107g	COG0484	heat shock protein binding
YALI2_E01123g	COG0096	One of the primary rRNA binding proteins, it binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit
YALI2_E01146g	COG4285	Biotin-protein ligase, N terminal
YALI2_E01149g	COG0014	Catalyzes the NADPH-dependent reduction of L-glutamate 5-phosphate into L-glutamate 5-semialdehyde and phosphate. The product spontaneously undergoes cyclization to form 1-pyrroline-5- carboxylate
YALI2_E01156g	COG0225	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
YALI2_E01159g	COG0408	coproporphyrinogen oxidase activity
YALI2_E01177g	COG0097	This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7 L12 stalk, and near the tRNA binding site of the peptidyltransferase center
YALI2_E01200g	COG0542	response to heat
YALI2_E01203g	COG0061	Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP
YALI2_E01210g	COG2815	serine threonine protein kinase
YALI2_E01210g	COG0515	serine threonine protein kinase
YALI2_E01224g	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
YALI2_E01235g	COG0484	heat shock protein binding
YALI2_E01244g	COG0484	heat shock protein binding
YALI2_E01245g	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
YALI2_E01252g	COG1132	(ABC) transporter
YALI2_E01266g	COG0060	amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile)
YALI2_E01269g	COG0285	dihydrofolate synthase activity
YALI2_E01279g	COG0061	Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP
YALI2_E01282g	COG0306	phosphate transporter
YALI2_E01285g	COG0091	The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome
YALI2_E01307g	COG0072	phenylalanine-tRNA ligase activity
YALI2_E01308g	COG0123	including yeast histone deacetylase and acetoin utilization protein
YALI2_E01336g	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
YALI2_E01342g	COG0671	phosphoesterase, PA-phosphatase related
YALI2_E01347g	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
YALI2_E01353g	COG0833	amino acid
YALI2_E01356g	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
YALI2_E01357g	COG0311	Catalyzes the hydrolysis of glutamine to glutamate and ammonia as part of the biosynthesis of pyridoxal 5'-phosphate. The resulting ammonia molecule is channeled to the active site of PdxS
YALI2_E01364g	COG1820	Belongs to the metallo-dependent hydrolases superfamily. NagA family
YALI2_E01365g	COG0225	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
YALI2_E01368g	COG0536	An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control
YALI2_E01372g	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
YALI2_E01376g	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
YALI2_E01384g	COG1946	Acyl-CoA thioesterase
YALI2_E01389g	COG0183	Belongs to the thiolase family
YALI2_E01394g	COG0656	L-ascorbic acid biosynthetic process
YALI2_E01396g	COG2264	protein methyltransferase activity
YALI2_E01398g	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
YALI2_E01402g	COG2814	Major facilitator Superfamily
YALI2_E01406g	COG0018	arginyl-trna synthetase
YALI2_E01418g	COG0484	heat shock protein binding
YALI2_E01424g	COG0508	dehydrogenase complex catalyzes the overall conversion of
YALI2_E01432g	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
YALI2_E01440g	COG0318	PFAM AMP-dependent synthetase and ligase
YALI2_E01448g	COG1196	nuclear chromosome segregation
YALI2_E01452g	COG1012	belongs to the aldehyde dehydrogenase family
YALI2_E01459g	COG1928	C-terminal four TMM region of protein-O-mannosyltransferase
YALI2_E01462g	COG0084	hydrolase, TatD family'
YALI2_E01467g	COG0423	glycine-tRNA ligase activity
YALI2_E01469g	COG4589	Belongs to the CDS family
YALI2_E01470g	COG0655	NAD(P)H dehydrogenase (quinone) activity
YALI2_E01491g	COG0484	heat shock protein binding
YALI2_E01492g	COG0006	proline dipeptidase activity
YALI2_E01497g	COG0124	histidyl-tRNA synthetase
YALI2_E01501g	COG0318	PFAM AMP-dependent synthetase and ligase
YALI2_E01508g	COG1741	Belongs to the pirin family
YALI2_E01510g	COG0318	PFAM AMP-dependent synthetase and ligase
YALI2_E01531g	COG3158	transport of potassium into the cell
YALI2_E01532g	COG1648	precorrin-2 dehydrogenase activity
YALI2_E01532g	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
YALI2_E01534g	COG1012	belongs to the aldehyde dehydrogenase family
YALI2_E01537g	COG0183	Belongs to the thiolase family
YALI2_E01544g	COG0323	This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a molecular matchmaker , a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex
YALI2_E01545g	COG0328	RNA-DNA hybrid ribonuclease activity
YALI2_E01554g	COG0484	heat shock protein binding
YALI2_E01567g	COG1028	Short-chain dehydrogenase reductase Sdr
YALI2_E01572g	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
YALI2_E01600g	COG5265	(ABC) transporter
YALI2_E01614g	COG0624	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls
YALI2_E01615g	COG0028	Belongs to the TPP enzyme family
YALI2_E01620g	COG0445	tRNA wobble uridine modification
YALI2_E01626g	COG0465	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins
YALI2_E01639g	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
YALI2_E01660g	COG0017	Asparaginyl-tRNA synthetase
YALI2_E01678g	COG0351	phosphomethylpyrimidine kinase
YALI2_E01678g	COG0352	thiamine-phosphate diphosphorylase activity
YALI2_E01679g	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
YALI2_E01690g	COG0488	(ABC) transporter
YALI2_E01699g	COG0277	FAD linked oxidase domain protein
YALI2_E01701g	COG4284	Utp--glucose-1-phosphate uridylyltransferase
YALI2_E01703g	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
YALI2_E01707g	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
YALI2_E01719g	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
YALI2_E01722g	COG0033	Phosphoglucomutase
YALI2_E01737g	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
YALI2_E01742g	COG2759	Belongs to the formate--tetrahydrofolate ligase family
YALI2_E01746g	COG1132	(ABC) transporter
YALI2_E01747g	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
YALI2_E01750g	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
YALI2_E01755g	COG0271	Belongs to the BolA IbaG family
YALI2_E01757g	COG0529	Catalyzes the synthesis of activated sulfate
YALI2_F00020g	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
YALI2_F00021g	COG0833	amino acid
YALI2_F00027g	COG0698	ribose 5-phosphate isomerase
YALI2_F00053g	COG0404	The glycine cleavage system catalyzes the degradation of glycine
YALI2_F00056g	COG2814	Major facilitator Superfamily
YALI2_F00070g	COG0588	phosphoglycerate mutase activity
YALI2_F00086g	COG1012	belongs to the aldehyde dehydrogenase family
YALI2_F00111g	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
YALI2_F00114g	COG0626	cystathionine gamma-synthase activity
YALI2_F00138g	COG1774	PSP1 C-terminal conserved region
YALI2_F00140g	COG0656	L-ascorbic acid biosynthetic process
YALI2_F00141g	COG0531	amino acid
YALI2_F00153g	COG0339	signal peptide processing
YALI2_F00173g	COG2226	methyltransferase
YALI2_F00175g	COG0513	Belongs to the DEAD box helicase family
YALI2_F00178g	COG0389	Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII
YALI2_F00184g	COG0563	adenylate kinase activity
YALI2_F00201g	COG0087	One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit
YALI2_F00212g	COG0481	GTPase activity
YALI2_F00223g	COG2815	serine threonine protein kinase
YALI2_F00223g	COG0515	serine threonine protein kinase
YALI2_F00243g	COG0542	response to heat
YALI2_F00256g	COG0004	ammonium transporteR
YALI2_F00272g	COG2271	Major facilitator Superfamily
YALI2_F00275g	COG2814	Major facilitator Superfamily
YALI2_F00292g	COG2815	serine threonine protein kinase
YALI2_F00292g	COG0515	serine threonine protein kinase
YALI2_F00293g	COG1946	Acyl-CoA thioesterase
YALI2_F00300g	COG0397	Uncharacterized ACR, YdiU/UPF0061 family
YALI2_F00315g	COG1472	Belongs to the glycosyl hydrolase 3 family
YALI2_F00329g	COG1785	Belongs to the alkaline phosphatase family
YALI2_F00335g	COG0514	ATP-dependent DNA helicase (RecQ)
YALI2_F00358g	COG2814	Major facilitator Superfamily
YALI2_F00362g	COG0513	Belongs to the DEAD box helicase family
YALI2_F00376g	COG1741	Belongs to the pirin family
YALI2_F00402g	COG3118	belongs to the thioredoxin family
YALI2_F00449g	COG1119	ATPase activity
YALI2_F00457g	COG0515	serine threonine protein kinase
YALI2_F00457g	COG2815	serine threonine protein kinase
YALI2_F00464g	COG0513	Belongs to the DEAD box helicase family
YALI2_F00470g	COG0753	catalase activity
YALI2_F00471g	COG0154	amidase activity
YALI2_F00480g	COG2271	Major facilitator Superfamily
YALI2_F00482g	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
YALI2_F00483g	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
YALI2_F00487g	COG0443	Heat shock 70 kDa protein
YALI2_F00505g	COG0753	catalase activity
YALI2_F00510g	COG0515	serine threonine protein kinase
YALI2_F00510g	COG2815	serine threonine protein kinase
YALI2_F00535g	COG0563	adenylate kinase activity
YALI2_F00541g	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
YALI2_F00571g	COG0513	Belongs to the DEAD box helicase family
YALI2_F00582g	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
YALI2_F00595g	COG2814	Major facilitator Superfamily
YALI2_F00607g	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
YALI2_F00611g	COG0101	tRNA pseudouridine synthase activity
YALI2_F00617g	COG0842	Transport permease protein
YALI2_F00617g	COG1131	(ABC) transporter
YALI2_F00617g	COG1716	ATPase activity
YALI2_F00624g	COG0287	Prephenate dehydrogenase
YALI2_F00639g	COG0004	ammonium transporteR
YALI2_F00650g	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
YALI2_F00682g	COG2149	membrane
YALI2_F00710g	COG0612	Peptidase, M16
YALI2_F00737g	COG0484	heat shock protein binding
YALI2_F00750g	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
YALI2_F00759g	COG0441	Catalyzes the attachment of threonine to tRNA(Thr) in a two-step reaction L-threonine is first activated by ATP to form Thr-AMP and then transferred to the acceptor end of tRNA(Thr)
YALI2_F00781g	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
YALI2_F00789g	COG1062	S-(hydroxymethyl)glutathione dehydrogenase activity
YALI2_F00807g	COG2205	protein histidine kinase activity
YALI2_F00807g	COG0784	Response regulator, receiver
YALI2_F00817g	COG2816	NAD+ diphosphatase activity
YALI2_F00818g	COG0450	alkyl hydroperoxide reductase
YALI2_F00820g	COG0604	alcohol dehydrogenase
YALI2_F00839g	COG0154	amidase activity
YALI2_F00845g	COG2814	Major facilitator Superfamily
YALI2_F00848g	COG0223	Attaches a formyl group to the free amino group of methionyl-tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus
YALI2_F00853g	COG0318	PFAM AMP-dependent synthetase and ligase
YALI2_F00854g	COG1061	Type III restriction enzyme res subunit
YALI2_F00871g	COG0365	Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA
YALI2_F00893g	COG0022	dehydrogenase e1 component
YALI2_F00907g	COG0058	SHG alpha-glucan phosphorylase activity
YALI2_F00910g	COG0538	isocitrate dehydrogenase activity
YALI2_F00919g	COG2814	Major facilitator Superfamily
YALI2_F00949g	COG0495	leucyl-tRNA aminoacylation
YALI2_F00952g	COG1028	Short-chain dehydrogenase reductase Sdr
YALI2_F00963g	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
YALI2_F00963g	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
YALI2_F00967g	COG0515	serine threonine protein kinase
YALI2_F00967g	COG2815	serine threonine protein kinase
YALI2_F00969g	COG1028	Short-chain dehydrogenase reductase Sdr
YALI2_F00978g	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
YALI2_F00981g	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
YALI2_M00017g	COG0636	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation
YALI2_M00019g	COG0713	ATP synthesis coupled electron transport
YALI2_M00029g	COG0838	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient