CLD04_00005 SM00382 ATPases associated with a variety of cellular activities CLD04_00005 SM00760 Bacterial dnaA protein helix-turn-helix domain CLD04_00010 SM00480 DNA polymerase III beta subunit CLD04_00030 SM00387 Histidine kinase-like ATPases CLD04_00030 SM00433 TopoisomeraseII CLD04_00035 SM00434 DNA Topoisomerase IV CLD04_00070 SM00116 Domain in cystathionine beta-synthase and other proteins. CLD04_00070 SM01240 CLD04_00070 CLD04_00075 SM00936 Penicillin-binding protein 5, C-terminal domain CLD04_00115 SM00257 Lysin motif CLD04_00115 SM00636 CLD04_00115 CLD04_00135 SM00382 ATPases associated with a variety of cellular activities CLD04_00145 SM00493 CLD04_00145 CLD04_00240 SM00465 GIY-YIG type nucleases (URI domain) CLD04_00250 SM00966 SpoVT / AbrB like domain CLD04_00265 SM01208 CLD04_00265 CLD04_00270 SM00493 CLD04_00270 CLD04_00275 SM00650 Ribosomal RNA adenine dimethylases CLD04_00320 SM01400 CLD04_00320 CLD04_00340 SM00487 DEAD-like helicases superfamily CLD04_00340 SM00490 helicase superfamily c-terminal domain CLD04_00340 SM00982 CLD04_00340 CLD04_00340 SM01058 CarD-like/TRCF domain CLD04_00345 SM00966 SpoVT / AbrB like domain CLD04_00360 SM00363 S4 RNA-binding domain CLD04_00380 SM00316 Ribosomal protein S1-like RNA-binding domain CLD04_00395 SM00331 Sigma factor PP2C-like phosphatases CLD04_00395 SM00332 Serine/threonine phosphatases, family 2C, catalytic domain CLD04_00405 SM00220 Serine/Threonine protein kinases, catalytic domain CLD04_00410 SM00977 TilS substrate C-terminal domain CLD04_00420 SM00382 ATPases associated with a variety of cellular activities CLD04_00465 SM00905 Dihydroneopterin aldolase CLD04_00475 SM00530 Helix-turn-helix XRE-family like proteins CLD04_00580 SM00382 ATPases associated with a variety of cellular activities CLD04_00580 SM01086 C-terminal, D2-small domain, of ClpB protein CLD04_00585 SM00382 ATPases associated with a variety of cellular activities CLD04_00595 SM00670 Large family of predicted nucleotide-binding domains CLD04_00625 SM00840 CLD04_00625 CLD04_00630 SM00535 Ribonuclease III family CLD04_00635 SM00967 RNA 2'-O ribose methyltransferase substrate binding CLD04_00660 SM00738 In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold. CLD04_00660 SM00739 KOW (Kyprides, Ouzounis, Woese) motif. CLD04_00665 SM00649 Ribosomal protein L11/L12 CLD04_00695 SM00663 RNA polymerase I subunit A N-terminus CLD04_00715 SM00838 Elongation factor G C-terminus CLD04_00715 SM00889 Elongation factor G, domain IV CLD04_00730 SM01403 CLD04_00730 CLD04_00750 SM01382 CLD04_00750 CLD04_00750 SM01383 CLD04_00750 CLD04_00765 SM00322 K homology RNA-binding domain CLD04_00785 SM01374 CLD04_00785 CLD04_00790 SM00739 KOW (Kyprides, Ouzounis, Woese) motif. CLD04_00855 SM00316 Ribosomal protein S1-like RNA-binding domain CLD04_00875 SM00662 RNA polymerases D CLD04_00885 SM00382 ATPases associated with a variety of cellular activities CLD04_00890 SM00382 ATPases associated with a variety of cellular activities CLD04_00930 SM00646 CLD04_00930 CLD04_00945 SM01251 CLD04_00945 CLD04_00995 SM00530 Helix-turn-helix XRE-family like proteins CLD04_01000 SM00530 Helix-turn-helix XRE-family like proteins CLD04_01125 SM00470 ParB-like nuclease domain CLD04_01235 SM00257 Lysin motif CLD04_01300 SM00257 Lysin motif CLD04_01300 SM00644 CLD04_01300 CLD04_01305 SM00860 SMI1 / KNR4 family CLD04_01320 SM00028 Tetratricopeptide repeats CLD04_01425 SM00342 helix_turn_helix, arabinose operon control protein CLD04_01535 SM00478 endonuclease III CLD04_01660 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_01685 SM00342 helix_turn_helix, arabinose operon control protein CLD04_01735 SM00450 Rhodanese Homology Domain CLD04_01755 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_01755 SM00866 CLD04_01755 CLD04_01795 SM00387 Histidine kinase-like ATPases CLD04_01800 SM00448 cheY-homologous receiver domain CLD04_01805 SM01130 CLD04_01805 CLD04_01820 SM00922 Mandelate racemase / muconate lactonizing enzyme, C-terminal domain CLD04_01825 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_01825 SM00895 CLD04_01825 CLD04_01850 SM00448 cheY-homologous receiver domain CLD04_01850 SM00862 Transcriptional regulatory protein, C terminal CLD04_01855 SM00387 Histidine kinase-like ATPases CLD04_01855 SM00388 His Kinase A (phosphoacceptor) domain CLD04_01860 SM00382 ATPases associated with a variety of cellular activities CLD04_01885 SM00873 B3/4 domain CLD04_01910 SM00859 Semialdehyde dehydrogenase, NAD binding domain CLD04_01925 SM01236 CLD04_01925 CLD04_01945 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_01995 SM00870 CLD04_01995 CLD04_02020 SM00448 cheY-homologous receiver domain CLD04_02020 SM00850 LytTr DNA-binding domain CLD04_02025 SM00382 ATPases associated with a variety of cellular activities CLD04_02060 SM00028 Tetratricopeptide repeats CLD04_02070 SM00642 Alpha-amylase domain CLD04_02080 SM00382 ATPases associated with a variety of cellular activities CLD04_02135 SM00418 helix_turn_helix, Arsenical Resistance Operon Repressor CLD04_02140 SM00116 Domain in cystathionine beta-synthase and other proteins. CLD04_02140 SM00382 ATPases associated with a variety of cellular activities CLD04_02295 SM00926 Molybdopterin oxidoreductase Fe4S4 domain CLD04_02335 SM00062 Bacterial periplasmic substrate-binding proteins CLD04_02365 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). CLD04_02365 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_02375 SM00934 Orotidine 5'-phosphate decarboxylase / HUMPS family CLD04_02385 SM00823 Phosphopantetheine attachment site CLD04_02405 SM00823 Phosphopantetheine attachment site CLD04_02405 SM01294 CLD04_02405 CLD04_02410 SM00823 Phosphopantetheine attachment site CLD04_02435 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_02450 SM00382 ATPases associated with a variety of cellular activities CLD04_02460 SM00062 Bacterial periplasmic substrate-binding proteins CLD04_02500 SM00710 Parallel beta-helix repeats CLD04_02500 SM00722 Domain present in carbohydrate binding proteins and sugar hydrolses CLD04_02525 SM00382 ATPases associated with a variety of cellular activities CLD04_02535 SM00448 cheY-homologous receiver domain CLD04_02535 SM00862 Transcriptional regulatory protein, C terminal CLD04_02540 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_02540 SM00387 Histidine kinase-like ATPases CLD04_02540 SM00388 His Kinase A (phosphoacceptor) domain CLD04_02545 SM00028 Tetratricopeptide repeats CLD04_02580 SM00382 ATPases associated with a variety of cellular activities CLD04_02610 SM00418 helix_turn_helix, Arsenical Resistance Operon Repressor CLD04_02615 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_02650 SM00420 helix_turn_helix, Deoxyribose operon repressor CLD04_02675 SM01329 CLD04_02675 CLD04_02720 SM00796 Allophanate hydrolase subunit 1 CLD04_02725 SM00797 Allophanate hydrolase subunit 2 CLD04_02730 SM00346 helix_turn_helix isocitrate lyase regulation CLD04_02805 SM00344 helix_turn_helix ASNC type CLD04_02810 SM00436 Bacterial DNA topoisomeraes I ATP-binding domain CLD04_02810 SM00437 Bacterial DNA topoisomerase I DNA-binding domain CLD04_02810 SM00493 CLD04_02810 CLD04_02890 SM00091 PAS domain CLD04_02890 SM00387 Histidine kinase-like ATPases CLD04_02895 SM00448 cheY-homologous receiver domain CLD04_02910 SM00382 ATPases associated with a variety of cellular activities CLD04_02965 SM00487 DEAD-like helicases superfamily CLD04_02965 SM00490 helicase superfamily c-terminal domain CLD04_02995 SM01005 Alanine racemase, C-terminal domain CLD04_03020 SM00387 Histidine kinase-like ATPases CLD04_03025 SM00331 Sigma factor PP2C-like phosphatases CLD04_03045 SM00331 Sigma factor PP2C-like phosphatases CLD04_03045 SM00332 Serine/threonine phosphatases, family 2C, catalytic domain CLD04_03050 SM00316 Ribosomal protein S1-like RNA-binding domain CLD04_03050 SM00732 Likely ribonuclease with RNase H fold. CLD04_03060 SM00731 SprT homologues. CLD04_03110 SM00530 Helix-turn-helix XRE-family like proteins CLD04_03225 SM00028 Tetratricopeptide repeats CLD04_03245 SM00860 SMI1 / KNR4 family CLD04_03255 SM00530 Helix-turn-helix XRE-family like proteins CLD04_03270 SM00357 Cold shock protein domain CLD04_03275 SM01058 CarD-like/TRCF domain CLD04_03290 SM00342 helix_turn_helix, arabinose operon control protein CLD04_03300 SM00342 helix_turn_helix, arabinose operon control protein CLD04_03300 SM00871 Bacterial transcription activator, effector binding domain CLD04_03305 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_03345 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_03370 SM00418 helix_turn_helix, Arsenical Resistance Operon Repressor CLD04_03380 SM00226 Low molecular weight phosphatase family CLD04_03395 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_03405 SM00418 helix_turn_helix, Arsenical Resistance Operon Repressor CLD04_03425 SM00387 Histidine kinase-like ATPases CLD04_03430 SM00421 helix_turn_helix, Lux Regulon CLD04_03430 SM00448 cheY-homologous receiver domain CLD04_03450 SM00422 helix_turn_helix, mercury resistance CLD04_03450 SM00871 Bacterial transcription activator, effector binding domain CLD04_03560 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_03575 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_03575 SM00418 helix_turn_helix, Arsenical Resistance Operon Repressor CLD04_03590 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_03590 SM00895 CLD04_03590 CLD04_03595 SM00257 Lysin motif CLD04_03595 SM00636 CLD04_03595 CLD04_03610 SM00098 Alkaline phosphatase homologues CLD04_03630 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. CLD04_03665 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_03665 SM00866 CLD04_03665 CLD04_03750 SM00382 ATPases associated with a variety of cellular activities CLD04_03760 SM00881 CoA binding domain CLD04_03790 SM00883 Chaperonin 10 Kd subunit CLD04_03815 SM00028 Tetratricopeptide repeats CLD04_03815 SM00382 ATPases associated with a variety of cellular activities CLD04_03820 SM00829 Enoylreductase CLD04_03865 SM00829 Enoylreductase CLD04_03930 SM00460 Transglutaminase/protease-like homologues CLD04_03970 SM01001 AIR carboxylase CLD04_03980 SM00998 Adenylosuccinate lyase C-terminus CLD04_03995 SM01211 CLD04_03995 CLD04_04020 SM00798 AICARFT/IMPCHase bienzyme CLD04_04020 SM00851 MGS-like domain CLD04_04025 SM01209 CLD04_04025 CLD04_04025 SM01210 CLD04_04025 CLD04_04030 SM00344 helix_turn_helix ASNC type CLD04_04075 SM00278 Helix-hairpin-helix DNA-binding motif class 1 CLD04_04075 SM00292 breast cancer carboxy-terminal domain CLD04_04075 SM00532 Ligase N family CLD04_04115 SM00845 GatB domain CLD04_04130 SM00046 Diacylglycerol kinase catalytic domain (presumed) CLD04_04155 SM00487 DEAD-like helicases superfamily CLD04_04160 SM00974 CLD04_04160 CLD04_04190 SM00028 Tetratricopeptide repeats CLD04_04255 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_04255 SM00342 helix_turn_helix, arabinose operon control protein CLD04_04280 SM00342 helix_turn_helix, arabinose operon control protein CLD04_04455 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). CLD04_04460 SM00382 ATPases associated with a variety of cellular activities CLD04_04470 SM00422 helix_turn_helix, mercury resistance CLD04_04490 SM00382 ATPases associated with a variety of cellular activities CLD04_04495 SM00487 DEAD-like helicases superfamily CLD04_04495 SM00490 helicase superfamily c-terminal domain CLD04_04505 SM00829 Enoylreductase CLD04_04510 SM00382 ATPases associated with a variety of cellular activities CLD04_04545 SM00656 CLD04_04545 CLD04_04555 SM00387 Histidine kinase-like ATPases CLD04_04560 SM00448 cheY-homologous receiver domain CLD04_04575 SM00849 Metallo-beta-lactamase superfamily CLD04_04650 SM00642 Alpha-amylase domain CLD04_04655 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_04655 SM00866 CLD04_04655 CLD04_04685 SM00226 Low molecular weight phosphatase family CLD04_04745 SM00478 endonuclease III CLD04_04780 SM00861 Transketolase, pyrimidine binding domain CLD04_04795 SM00382 ATPases associated with a variety of cellular activities CLD04_04845 SM00382 ATPases associated with a variety of cellular activities CLD04_04850 SM00382 ATPases associated with a variety of cellular activities CLD04_04865 SM00342 helix_turn_helix, arabinose operon control protein CLD04_04885 SM00387 Histidine kinase-like ATPases CLD04_04890 SM00421 helix_turn_helix, Lux Regulon CLD04_04890 SM00448 cheY-homologous receiver domain CLD04_04900 SM00382 ATPases associated with a variety of cellular activities CLD04_04945 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_05025 SM00287 Bacterial SH3 domain homologues CLD04_05055 SM00478 endonuclease III CLD04_05055 SM00525 CLD04_05055 CLD04_05085 SM00382 ATPases associated with a variety of cellular activities CLD04_05255 SM01060 CLD04_05255 CLD04_05260 SM00382 ATPases associated with a variety of cellular activities CLD04_05265 SM00062 Bacterial periplasmic substrate-binding proteins CLD04_05295 SM00530 Helix-turn-helix XRE-family like proteins CLD04_05310 SM00567 E-Z type HEAT repeats CLD04_05340 SM00763 PrkA AAA domain CLD04_05350 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_05385 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_05390 SM00382 ATPases associated with a variety of cellular activities CLD04_05395 SM00382 ATPases associated with a variety of cellular activities CLD04_05405 SM00357 Cold shock protein domain CLD04_05420 SM00267 diguanylate cyclase CLD04_05450 SM00318 Staphylococcal nuclease homologues CLD04_05460 SM00363 S4 RNA-binding domain CLD04_05470 SM00116 Domain in cystathionine beta-synthase and other proteins. CLD04_05515 SM00065 Domain present in phytochromes and cGMP-specific phosphodiesterases. CLD04_05515 SM00387 Histidine kinase-like ATPases CLD04_05520 SM00421 helix_turn_helix, Lux Regulon CLD04_05520 SM00448 cheY-homologous receiver domain CLD04_05540 SM00257 Lysin motif CLD04_05560 SM00098 Alkaline phosphatase homologues CLD04_05565 SM00257 Lysin motif CLD04_05595 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_05625 SM00563 Phosphate acyltransferases CLD04_05635 SM01091 Transporter associated domain CLD04_05640 SM00422 helix_turn_helix, mercury resistance CLD04_05650 SM01091 Transporter associated domain CLD04_05710 SM00382 ATPases associated with a variety of cellular activities CLD04_05715 SM00382 ATPases associated with a variety of cellular activities CLD04_05770 SM00729 Elongator protein 3, MiaB family, Radical SAM CLD04_05800 SM00382 ATPases associated with a variety of cellular activities CLD04_05820 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. CLD04_05860 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_05890 SM00382 ATPases associated with a variety of cellular activities CLD04_05975 SM01022 CLD04_05975 CLD04_05990 SM00849 Metallo-beta-lactamase superfamily CLD04_06030 SM00829 Enoylreductase CLD04_06040 SM00855 Phosphoglycerate mutase family CLD04_06060 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). CLD04_06075 SM00914 CLD04_06075 CLD04_06090 SM00894 Excalibur calcium-binding domain CLD04_06125 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_06150 SM00354 helix_turn _helix lactose operon repressor CLD04_06285 SM00342 helix_turn_helix, arabinose operon control protein CLD04_06290 SM00354 helix_turn _helix lactose operon repressor CLD04_06310 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_06355 SM00922 Mandelate racemase / muconate lactonizing enzyme, C-terminal domain CLD04_06470 SM00316 Ribosomal protein S1-like RNA-binding domain CLD04_06480 SM00752 Horizontally Transferred TransMembrane Domain CLD04_06560 SM00859 Semialdehyde dehydrogenase, NAD binding domain CLD04_06580 SM01097 Carbamoyl-phosphate synthase small chain, CPSase domain CLD04_06585 SM01096 Carbamoyl-phosphate synthetase large chain, oligomerisation domain CLD04_06635 SM00825 Beta-ketoacyl synthase CLD04_06645 SM00382 ATPases associated with a variety of cellular activities CLD04_06650 SM00382 ATPases associated with a variety of cellular activities CLD04_06695 SM00382 ATPases associated with a variety of cellular activities CLD04_06700 SM00382 ATPases associated with a variety of cellular activities CLD04_06765 SM01118 CLD04_06765 CLD04_06775 SM00954 Region found in RelA / SpoT proteins CLD04_07045 SM00860 SMI1 / KNR4 family CLD04_07140 SM00635 Bacterial Ig-like domain 2 CLD04_07285 SM00382 ATPases associated with a variety of cellular activities CLD04_07295 SM00835 Cupin CLD04_07325 SM00829 Enoylreductase CLD04_07345 SM00354 helix_turn _helix lactose operon repressor CLD04_07355 SM00858 CLD04_07355 CLD04_07370 SM00382 ATPases associated with a variety of cellular activities CLD04_07375 SM00028 Tetratricopeptide repeats CLD04_07390 SM00257 Lysin motif CLD04_07390 SM00644 CLD04_07390 CLD04_07415 SM00530 Helix-turn-helix XRE-family like proteins CLD04_07430 SM00382 ATPases associated with a variety of cellular activities CLD04_07530 SM00257 Lysin motif CLD04_07595 SM00257 Lysin motif CLD04_07595 SM00644 CLD04_07595 CLD04_07640 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. CLD04_07665 SM00382 ATPases associated with a variety of cellular activities CLD04_07680 SM00922 Mandelate racemase / muconate lactonizing enzyme, C-terminal domain CLD04_07690 SM00382 ATPases associated with a variety of cellular activities CLD04_07750 SM00359 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase CLD04_07765 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_07785 SM00855 Phosphoglycerate mutase family CLD04_07810 SM00382 ATPases associated with a variety of cellular activities CLD04_07825 SM00448 cheY-homologous receiver domain CLD04_07825 SM00862 Transcriptional regulatory protein, C terminal CLD04_07830 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_07830 SM00387 Histidine kinase-like ATPases CLD04_07830 SM00388 His Kinase A (phosphoacceptor) domain CLD04_07855 SM00116 Domain in cystathionine beta-synthase and other proteins. CLD04_07855 SM00924 MgtE intracellular N domain CLD04_07860 SM00422 helix_turn_helix, mercury resistance CLD04_07875 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_07910 SM00559 Ku70 and Ku80 are 70kDa and 80kDa subunits of the Lupus Ku autoantigen CLD04_07915 SM00052 Putative diguanylate phosphodiesterase CLD04_07915 SM00267 diguanylate cyclase CLD04_07975 SM00091 PAS domain CLD04_07975 SM00387 Histidine kinase-like ATPases CLD04_07975 SM00388 His Kinase A (phosphoacceptor) domain CLD04_08015 SM01007 Class II Aldolase and Adducin N-terminal domain CLD04_08040 SM00387 Histidine kinase-like ATPases CLD04_08040 SM00388 His Kinase A (phosphoacceptor) domain CLD04_08045 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_08060 SM00382 ATPases associated with a variety of cellular activities CLD04_08060 SM01086 C-terminal, D2-small domain, of ClpB protein CLD04_08095 SM00822 CLD04_08095 CLD04_08100 SM00257 Lysin motif CLD04_08105 SM00257 Lysin motif CLD04_08110 SM00636 CLD04_08110 CLD04_08160 SM00354 helix_turn _helix lactose operon repressor CLD04_08165 SM01061 CAT RNA binding domain CLD04_08205 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). CLD04_08205 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_08225 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) CLD04_08225 SM00091 PAS domain CLD04_08225 SM00387 Histidine kinase-like ATPases CLD04_08225 SM00388 His Kinase A (phosphoacceptor) domain CLD04_08240 SM00260 Two component signalling adaptor domain CLD04_08240 SM00448 cheY-homologous receiver domain CLD04_08255 SM00257 Lysin motif CLD04_08270 SM00052 Putative diguanylate phosphodiesterase CLD04_08375 SM00852 Probable molybdopterin binding domain CLD04_08395 SM00382 ATPases associated with a variety of cellular activities CLD04_08400 SM00382 ATPases associated with a variety of cellular activities CLD04_08415 SM00382 ATPases associated with a variety of cellular activities CLD04_08420 SM01066 Carbohydrate binding domain CLD04_08425 SM00420 helix_turn_helix, Deoxyribose operon repressor CLD04_08425 SM01134 CLD04_08425 CLD04_08450 SM00382 ATPases associated with a variety of cellular activities CLD04_08475 SM00966 SpoVT / AbrB like domain CLD04_08480 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) CLD04_08480 SM00091 PAS domain CLD04_08480 SM00387 Histidine kinase-like ATPases CLD04_08480 SM00388 His Kinase A (phosphoacceptor) domain CLD04_08500 SM00849 Metallo-beta-lactamase superfamily CLD04_08535 SM00861 Transketolase, pyrimidine binding domain CLD04_08630 SM00838 Elongation factor G C-terminus CLD04_08650 SM00670 Large family of predicted nucleotide-binding domains CLD04_08675 SM00878 Biotin carboxylase C-terminal domain CLD04_08720 SM00116 Domain in cystathionine beta-synthase and other proteins. CLD04_08770 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. CLD04_08830 SM00740 CLD04_08830 CLD04_08835 SM00740 CLD04_08835 CLD04_08890 SM00842 Cell division protein FtsA CLD04_08895 SM00864 Tubulin/FtsZ family, GTPase domain CLD04_08895 SM00865 Tubulin/FtsZ family, C-terminal domain CLD04_08960 SM00823 Phosphopantetheine attachment site CLD04_08995 SM00382 ATPases associated with a variety of cellular activities CLD04_09030 SM00363 S4 RNA-binding domain CLD04_09055 SM00363 S4 RNA-binding domain CLD04_09080 SM01097 Carbamoyl-phosphate synthase small chain, CPSase domain CLD04_09085 SM00851 MGS-like domain CLD04_09085 SM01096 Carbamoyl-phosphate synthetase large chain, oligomerisation domain CLD04_09085 SM01209 CLD04_09085 CLD04_09100 SM00934 Orotidine 5'-phosphate decarboxylase / HUMPS family CLD04_09150 SM00831 Cation transporter/ATPase, N-terminus CLD04_09165 SM00072 Guanylate kinase homologues. CLD04_09170 SM01409 CLD04_09170 CLD04_09180 SM00487 DEAD-like helicases superfamily CLD04_09180 SM00490 helicase superfamily c-terminal domain CLD04_09205 SM00331 Sigma factor PP2C-like phosphatases CLD04_09205 SM00332 Serine/threonine phosphatases, family 2C, catalytic domain CLD04_09210 SM00220 Serine/Threonine protein kinases, catalytic domain CLD04_09210 SM00740 CLD04_09210 CLD04_09225 SM00983 Thiamin pyrophosphokinase, vitamin B1 binding domain CLD04_09245 SM01120 CLD04_09245 CLD04_09245 SM01121 CLD04_09245 CLD04_09260 SM00487 DEAD-like helicases superfamily CLD04_09260 SM00490 helicase superfamily c-terminal domain CLD04_09275 SM00827 Acyl transferase domain in polyketide synthase (PKS) enzymes. CLD04_09280 SM00822 CLD04_09280 CLD04_09290 SM00358 Double-stranded RNA binding motif CLD04_09290 SM00535 Ribonuclease III family CLD04_09295 SM00968 SMC proteins Flexible Hinge Domain CLD04_09300 SM00382 ATPases associated with a variety of cellular activities CLD04_09300 SM00962 SRP54-type protein, GTPase domain CLD04_09300 SM00963 SRP54-type protein, helical bundle domain CLD04_09320 SM00382 ATPases associated with a variety of cellular activities CLD04_09320 SM00962 SRP54-type protein, GTPase domain CLD04_09320 SM00963 SRP54-type protein, helical bundle domain CLD04_09380 SM00881 CoA binding domain CLD04_09390 SM00436 Bacterial DNA topoisomeraes I ATP-binding domain CLD04_09390 SM00437 Bacterial DNA topoisomerase I DNA-binding domain CLD04_09390 SM00493 CLD04_09390 CLD04_09410 SM00382 ATPases associated with a variety of cellular activities CLD04_09410 SM01086 C-terminal, D2-small domain, of ClpB protein CLD04_09450 SM00382 ATPases associated with a variety of cellular activities CLD04_09500 SM00448 cheY-homologous receiver domain CLD04_09535 SM00962 SRP54-type protein, GTPase domain CLD04_09545 SM00448 cheY-homologous receiver domain CLD04_09550 SM00073 Histidine Phosphotransfer domain CLD04_09550 SM00260 Two component signalling adaptor domain CLD04_09550 SM00387 Histidine kinase-like ATPases CLD04_09550 SM01231 CLD04_09550 CLD04_09555 SM00260 Two component signalling adaptor domain CLD04_09615 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. CLD04_09625 SM00479 CLD04_09625 CLD04_09625 SM00481 DNA polymerase alpha chain like domain CLD04_09635 SM00316 Ribosomal protein S1-like RNA-binding domain CLD04_09635 SM00322 K homology RNA-binding domain CLD04_09670 SM00904 Riboflavin kinase CLD04_09675 SM01387 CLD04_09675 CLD04_09680 SM00316 Ribosomal protein S1-like RNA-binding domain CLD04_09680 SM00322 K homology RNA-binding domain CLD04_09710 SM00859 Semialdehyde dehydrogenase, NAD binding domain CLD04_09720 SM01130 CLD04_09720 CLD04_09725 SM00849 Metallo-beta-lactamase superfamily CLD04_09740 SM00382 ATPases associated with a variety of cellular activities CLD04_09740 SM00843 CLD04_09740 CLD04_09745 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_09745 SM00866 CLD04_09745 CLD04_09780 SM00530 Helix-turn-helix XRE-family like proteins CLD04_09790 SM00852 Probable molybdopterin binding domain CLD04_09795 SM00382 ATPases associated with a variety of cellular activities CLD04_09805 SM00322 K homology RNA-binding domain CLD04_09805 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. CLD04_09820 SM00829 Enoylreductase CLD04_09830 SM00729 Elongator protein 3, MiaB family, Radical SAM CLD04_09845 SM00533 DNA-binding domain of DNA mismatch repair MUTS family CLD04_09845 SM00534 ATPase domain of DNA mismatch repair MUTS family CLD04_09850 SM00853 MutL C terminal dimerisation domain CLD04_09850 SM01340 CLD04_09850 CLD04_09875 SM00849 Metallo-beta-lactamase superfamily CLD04_09960 SM00646 CLD04_09960 CLD04_09970 SM00382 ATPases associated with a variety of cellular activities CLD04_09985 SM00422 helix_turn_helix, mercury resistance CLD04_09990 SM01230 CLD04_09990 CLD04_10040 SM00860 SMI1 / KNR4 family CLD04_10155 SM00318 Staphylococcal nuclease homologues CLD04_10165 SM01005 Alanine racemase, C-terminal domain CLD04_10305 SM00257 Lysin motif CLD04_10310 SM00857 Resolvase, N terminal domain CLD04_10320 SM00861 Transketolase, pyrimidine binding domain CLD04_10345 SM00448 cheY-homologous receiver domain CLD04_10415 SM01207 CLD04_10415 CLD04_10420 SM00881 CoA binding domain CLD04_10425 SM00387 Histidine kinase-like ATPases CLD04_10425 SM00433 TopoisomeraseII CLD04_10430 SM00434 DNA Topoisomerase IV CLD04_10445 SM01067 Cellulose binding domain CLD04_10460 SM00606 Cellulose Binding Domain Type IV CLD04_10505 SM00878 Biotin carboxylase C-terminal domain CLD04_10535 SM00823 Phosphopantetheine attachment site CLD04_10535 SM00824 Thioesterase CLD04_10605 SM00359 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase CLD04_10620 SM00822 CLD04_10620 CLD04_10655 SM00926 Molybdopterin oxidoreductase Fe4S4 domain CLD04_10680 SM00354 helix_turn _helix lactose operon repressor CLD04_10700 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). CLD04_10700 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_10720 SM00656 CLD04_10720 CLD04_10765 SM00530 Helix-turn-helix XRE-family like proteins CLD04_10925 SM00028 Tetratricopeptide repeats CLD04_10970 SM00860 SMI1 / KNR4 family CLD04_10975 SM00860 SMI1 / KNR4 family CLD04_10985 SM00860 SMI1 / KNR4 family CLD04_11000 SM00342 helix_turn_helix, arabinose operon control protein CLD04_11015 SM00849 Metallo-beta-lactamase superfamily CLD04_11020 SM00871 Bacterial transcription activator, effector binding domain CLD04_11035 SM00418 helix_turn_helix, Arsenical Resistance Operon Repressor CLD04_11075 SM00421 helix_turn_helix, Lux Regulon CLD04_11075 SM00448 cheY-homologous receiver domain CLD04_11080 SM00257 Lysin motif CLD04_11085 SM00341 Helicase and RNase D C-terminal CLD04_11085 SM00487 DEAD-like helicases superfamily CLD04_11085 SM00490 helicase superfamily c-terminal domain CLD04_11085 SM00956 CLD04_11085 CLD04_11175 SM00861 Transketolase, pyrimidine binding domain CLD04_11180 SM00327 von Willebrand factor (vWF) type A domain CLD04_11185 SM00382 ATPases associated with a variety of cellular activities CLD04_11195 SM00257 Lysin motif CLD04_11295 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. CLD04_11295 SM00245 tail specific protease CLD04_11330 SM00014 Acid phosphatase homologues CLD04_11380 SM00882 Coenzyme A transferase CLD04_11385 SM00882 Coenzyme A transferase CLD04_11445 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_11485 SM00382 ATPases associated with a variety of cellular activities CLD04_11535 SM00567 E-Z type HEAT repeats CLD04_11535 SM00932 Scaffold protein Nfu/NifU N terminal CLD04_11540 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. CLD04_11560 SM00357 Cold shock protein domain CLD04_11600 SM00279 Helix-hairpin-helix class 2 (Pol1 family) motifs CLD04_11600 SM00475 5'-3' exonuclease CLD04_11665 SM00354 helix_turn _helix lactose operon repressor CLD04_11680 SM00491 CLD04_11680 CLD04_11695 SM00981 CLD04_11695 CLD04_11725 SM00487 DEAD-like helicases superfamily CLD04_11725 SM00490 helicase superfamily c-terminal domain CLD04_11785 SM00478 endonuclease III CLD04_11785 SM00525 CLD04_11785 CLD04_11815 SM00479 CLD04_11815 CLD04_11815 SM00487 DEAD-like helicases superfamily CLD04_11815 SM00491 CLD04_11815 CLD04_11855 SM00851 MGS-like domain CLD04_11905 SM00914 CLD04_11905 CLD04_11910 SM00028 Tetratricopeptide repeats CLD04_11975 SM00138 Methyltransferase, chemotaxis proteins CLD04_11980 SM00562 CLD04_11980 CLD04_12010 SM00411 bacterial (prokaryotic) histone like domain CLD04_12065 SM01240 CLD04_12065 CLD04_12070 SM00316 Ribosomal protein S1-like RNA-binding domain CLD04_12110 SM00839 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase CLD04_12130 SM00257 Lysin motif CLD04_12140 SM00487 DEAD-like helicases superfamily CLD04_12140 SM00490 helicase superfamily c-terminal domain CLD04_12180 SM00091 PAS domain CLD04_12180 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_12180 SM00387 Histidine kinase-like ATPases CLD04_12180 SM00388 His Kinase A (phosphoacceptor) domain CLD04_12185 SM00448 cheY-homologous receiver domain CLD04_12185 SM00862 Transcriptional regulatory protein, C terminal CLD04_12205 SM00363 S4 RNA-binding domain CLD04_12355 SM00387 Histidine kinase-like ATPases CLD04_12365 SM00936 Penicillin-binding protein 5, C-terminal domain CLD04_12405 SM00919 Malic enzyme, NAD binding domain CLD04_12405 SM01274 CLD04_12405 CLD04_12420 SM00870 CLD04_12420 CLD04_12425 SM00530 Helix-turn-helix XRE-family like proteins CLD04_12530 SM00849 Metallo-beta-lactamase superfamily CLD04_12560 SM00849 Metallo-beta-lactamase superfamily CLD04_12570 SM01350 CLD04_12570 CLD04_12620 SM00382 ATPases associated with a variety of cellular activities CLD04_12630 SM00062 Bacterial periplasmic substrate-binding proteins CLD04_12630 SM00079 Eukaryotic homologues of bacterial periplasmic substrate binding proteins. CLD04_12640 SM00046 Diacylglycerol kinase catalytic domain (presumed) CLD04_12650 SM00422 helix_turn_helix, mercury resistance CLD04_12660 SM00861 Transketolase, pyrimidine binding domain CLD04_12680 SM00839 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase CLD04_12690 SM00091 PAS domain CLD04_12690 SM00382 ATPases associated with a variety of cellular activities CLD04_12735 SM00646 CLD04_12735 CLD04_12750 SM00448 cheY-homologous receiver domain CLD04_12755 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. CLD04_12770 SM00363 S4 RNA-binding domain CLD04_12775 SM00861 Transketolase, pyrimidine binding domain CLD04_12810 SM00878 Biotin carboxylase C-terminal domain CLD04_12855 SM00382 ATPases associated with a variety of cellular activities CLD04_12865 SM00841 Elongation factor P, C-terminal CLD04_12865 SM01185 CLD04_12865 CLD04_12900 SM00529 Helix-turn-helix diphteria tox regulatory element CLD04_12910 SM00450 Rhodanese Homology Domain CLD04_12930 SM00487 DEAD-like helicases superfamily CLD04_12930 SM00490 helicase superfamily c-terminal domain CLD04_12945 SM00530 Helix-turn-helix XRE-family like proteins CLD04_13005 SM00382 ATPases associated with a variety of cellular activities CLD04_13020 SM01091 Transporter associated domain CLD04_13045 SM00849 Metallo-beta-lactamase superfamily CLD04_13065 SM00631 CLD04_13065 CLD04_13085 SM00028 Tetratricopeptide repeats CLD04_13125 SM00382 ATPases associated with a variety of cellular activities CLD04_13130 SM00382 ATPases associated with a variety of cellular activities CLD04_13175 SM00257 Lysin motif CLD04_13210 SM00518 AP endonuclease family 2 CLD04_13215 SM00487 DEAD-like helicases superfamily CLD04_13215 SM00490 helicase superfamily c-terminal domain CLD04_13260 SM00400 zinc finger CLD04_13260 SM00493 CLD04_13260 CLD04_13275 SM00116 Domain in cystathionine beta-synthase and other proteins. CLD04_13320 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. CLD04_13370 SM00729 Elongator protein 3, MiaB family, Radical SAM CLD04_13385 SM00271 DnaJ molecular chaperone homology domain CLD04_13405 SM00729 Elongator protein 3, MiaB family, Radical SAM CLD04_13410 SM00838 Elongation factor G C-terminus CLD04_13445 SM00849 Metallo-beta-lactamase superfamily CLD04_13455 SM00278 Helix-hairpin-helix DNA-binding motif class 1 CLD04_13475 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. CLD04_13485 SM01103 CLD04_13485 CLD04_13525 SM01350 CLD04_13525 CLD04_13580 SM00450 Rhodanese Homology Domain CLD04_13625 SM00422 helix_turn_helix, mercury resistance CLD04_13640 SM01091 Transporter associated domain CLD04_13700 SM00344 helix_turn_helix ASNC type CLD04_13820 SM00287 Bacterial SH3 domain homologues CLD04_13860 SM00422 helix_turn_helix, mercury resistance CLD04_13865 SM00829 Enoylreductase CLD04_13875 SM00640 Glycosyl hydrolases family 32 CLD04_13900 SM00382 ATPases associated with a variety of cellular activities CLD04_13970 SM00926 Molybdopterin oxidoreductase Fe4S4 domain CLD04_13970 SM00929 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region CLD04_14000 SM00650 Ribosomal RNA adenine dimethylases CLD04_14055 SM00732 Likely ribonuclease with RNase H fold. CLD04_14065 SM00863 Threonyl and Alanyl tRNA synthetase second additional domain CLD04_14075 SM00382 ATPases associated with a variety of cellular activities CLD04_14080 SM00062 Bacterial periplasmic substrate-binding proteins CLD04_14080 SM00079 Eukaryotic homologues of bacterial periplasmic substrate binding proteins. CLD04_14110 SM00382 ATPases associated with a variety of cellular activities CLD04_14115 SM00028 Tetratricopeptide repeats CLD04_14135 SM00382 ATPases associated with a variety of cellular activities CLD04_14165 SM00287 Bacterial SH3 domain homologues CLD04_14165 SM00646 CLD04_14165 CLD04_14175 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. CLD04_14175 SM00954 Region found in RelA / SpoT proteins CLD04_14230 SM01323 CLD04_14230 CLD04_14250 SM00382 ATPases associated with a variety of cellular activities CLD04_14255 SM00278 Helix-hairpin-helix DNA-binding motif class 1 CLD04_14305 SM00257 Lysin motif CLD04_14350 SM01317 CLD04_14350 CLD04_14445 SM00257 Lysin motif CLD04_14455 SM01004 Delta-aminolevulinic acid dehydratase CLD04_14490 SM00382 ATPases associated with a variety of cellular activities CLD04_14490 SM00464 Found in ATP-dependent protease La (LON) CLD04_14495 SM00382 ATPases associated with a variety of cellular activities CLD04_14500 SM00382 ATPases associated with a variety of cellular activities CLD04_14500 SM00994 ClpX C4-type zinc finger CLD04_14500 SM01086 C-terminal, D2-small domain, of ClpB protein CLD04_14525 SM01329 CLD04_14525 CLD04_14530 SM00917 LeuA allosteric (dimerisation) domain CLD04_14590 SM00909 Sporulation and spore germination CLD04_14600 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_14605 SM00421 helix_turn_helix, Lux Regulon CLD04_14650 SM00465 GIY-YIG type nucleases (URI domain) CLD04_14660 SM00813 Alpha-L-arabinofuranosidase C-terminus CLD04_14665 SM00893 Electron transfer flavoprotein domain CLD04_14670 SM00893 Electron transfer flavoprotein domain CLD04_14695 SM00463 Small MutS-related domain CLD04_14695 SM00533 DNA-binding domain of DNA mismatch repair MUTS family CLD04_14695 SM00534 ATPase domain of DNA mismatch repair MUTS family CLD04_14700 SM00278 Helix-hairpin-helix DNA-binding motif class 1 CLD04_14700 SM00481 DNA polymerase alpha chain like domain CLD04_14700 SM00483 DNA polymerase X family CLD04_14720 SM00873 B3/4 domain CLD04_14720 SM00874 tRNA synthetase B5 domain CLD04_14720 SM00896 Ferredoxin-fold anticodon binding domain CLD04_14735 SM00967 RNA 2'-O ribose methyltransferase substrate binding CLD04_14775 SM00813 Alpha-L-arabinofuranosidase C-terminus CLD04_14805 SM01007 Class II Aldolase and Adducin N-terminal domain CLD04_14875 SM00448 cheY-homologous receiver domain CLD04_14875 SM00850 LytTr DNA-binding domain CLD04_14880 SM00065 Domain present in phytochromes and cGMP-specific phosphodiesterases. CLD04_14880 SM00387 Histidine kinase-like ATPases CLD04_14890 SM00863 Threonyl and Alanyl tRNA synthetase second additional domain CLD04_14905 SM00382 ATPases associated with a variety of cellular activities CLD04_14925 SM00846 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain CLD04_14955 SM00898 Formamidopyrimidine-DNA glycosylase N-terminal domain CLD04_14955 SM01232 CLD04_14955 CLD04_14960 SM00279 Helix-hairpin-helix class 2 (Pol1 family) motifs CLD04_14960 SM00474 3'-5' exonuclease CLD04_14960 SM00475 5'-3' exonuclease CLD04_14960 SM00482 DNA polymerase A domain CLD04_14965 SM00091 PAS domain CLD04_14965 SM00387 Histidine kinase-like ATPases CLD04_14965 SM00388 His Kinase A (phosphoacceptor) domain CLD04_14970 SM00448 cheY-homologous receiver domain CLD04_14970 SM00862 Transcriptional regulatory protein, C terminal CLD04_14980 SM01329 CLD04_14980 CLD04_15025 SM00919 Malic enzyme, NAD binding domain CLD04_15025 SM01274 CLD04_15025 CLD04_15030 SM00481 DNA polymerase alpha chain like domain CLD04_15060 SM00116 Domain in cystathionine beta-synthase and other proteins. CLD04_15075 SM00904 Riboflavin kinase CLD04_15095 SM00382 ATPases associated with a variety of cellular activities CLD04_15110 SM00062 Bacterial periplasmic substrate-binding proteins CLD04_15115 SM00062 Bacterial periplasmic substrate-binding proteins CLD04_15130 SM00849 Metallo-beta-lactamase superfamily CLD04_15155 SM00852 Probable molybdopterin binding domain CLD04_15215 SM00981 CLD04_15215 CLD04_15245 SM00065 Domain present in phytochromes and cGMP-specific phosphodiesterases. CLD04_15250 SM00267 diguanylate cyclase CLD04_15260 SM00363 S4 RNA-binding domain CLD04_15260 SM01390 CLD04_15260 CLD04_15270 SM00363 S4 RNA-binding domain CLD04_15290 SM00116 Domain in cystathionine beta-synthase and other proteins. CLD04_15310 SM00354 helix_turn _helix lactose operon repressor CLD04_15315 SM00830 Chorismate mutase type II CLD04_15340 SM00382 ATPases associated with a variety of cellular activities CLD04_15340 SM00843 CLD04_15340 CLD04_15375 SM00919 Malic enzyme, NAD binding domain CLD04_15375 SM01274 CLD04_15375 CLD04_15380 SM00849 Metallo-beta-lactamase superfamily CLD04_15400 SM00642 Alpha-amylase domain CLD04_15405 SM00046 Diacylglycerol kinase catalytic domain (presumed) CLD04_15445 SM00382 ATPases associated with a variety of cellular activities CLD04_15450 SM00420 helix_turn_helix, Deoxyribose operon repressor CLD04_15455 SM00363 S4 RNA-binding domain CLD04_15530 SM00729 Elongator protein 3, MiaB family, Radical SAM CLD04_15530 SM00876 Biotin and Thiamin Synthesis associated domain CLD04_15560 SM00354 helix_turn _helix lactose operon repressor CLD04_15585 SM00450 Rhodanese Homology Domain CLD04_15600 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) CLD04_15600 SM00091 PAS domain CLD04_15620 SM00382 ATPases associated with a variety of cellular activities CLD04_15625 SM00387 Histidine kinase-like ATPases CLD04_15630 SM00448 cheY-homologous receiver domain CLD04_15630 SM00862 Transcriptional regulatory protein, C terminal CLD04_15640 SM00382 ATPases associated with a variety of cellular activities CLD04_15655 SM00382 ATPases associated with a variety of cellular activities CLD04_15660 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_15670 SM00729 Elongator protein 3, MiaB family, Radical SAM CLD04_15730 SM00382 ATPases associated with a variety of cellular activities CLD04_15770 SM01234 CLD04_15770 CLD04_15775 SM00947 Carbonic anhydrase CLD04_15810 SM00382 ATPases associated with a variety of cellular activities CLD04_15825 SM00922 Mandelate racemase / muconate lactonizing enzyme, C-terminal domain CLD04_15865 SM00984 UDP binding domain CLD04_15925 SM00642 Alpha-amylase domain CLD04_16060 SM00244 prohibitin homologues CLD04_16120 SM00047 Lysozyme subfamily 2 CLD04_16170 SM00420 helix_turn_helix, Deoxyribose operon repressor CLD04_16170 SM01134 CLD04_16170 CLD04_16175 SM01007 Class II Aldolase and Adducin N-terminal domain CLD04_16185 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). CLD04_16185 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_16185 SM00319 Homologues of the ligand binding domain of Tar CLD04_16190 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). CLD04_16190 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_16190 SM00319 Homologues of the ligand binding domain of Tar CLD04_16195 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). CLD04_16195 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_16195 SM00319 Homologues of the ligand binding domain of Tar CLD04_16200 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). CLD04_16200 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_16200 SM00319 Homologues of the ligand binding domain of Tar CLD04_16220 SM00642 Alpha-amylase domain CLD04_16225 SM01091 Transporter associated domain CLD04_16280 SM00316 Ribosomal protein S1-like RNA-binding domain CLD04_16290 SM00344 helix_turn_helix ASNC type CLD04_16310 SM00387 Histidine kinase-like ATPases CLD04_16310 SM00388 His Kinase A (phosphoacceptor) domain CLD04_16315 SM01298 CLD04_16315 CLD04_16320 SM00479 CLD04_16320 CLD04_16350 SM00091 PAS domain CLD04_16350 SM00387 Histidine kinase-like ATPases CLD04_16355 SM00448 cheY-homologous receiver domain CLD04_16365 SM00382 ATPases associated with a variety of cellular activities CLD04_16430 SM00421 helix_turn_helix, Lux Regulon CLD04_16430 SM00448 cheY-homologous receiver domain CLD04_16460 SM00052 Putative diguanylate phosphodiesterase CLD04_16505 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. CLD04_16555 SM01002 Alanine dehydrogenase/PNT, C-terminal domain CLD04_16555 SM01003 Alanine dehydrogenase/PNT, N-terminal domain CLD04_16565 SM00923 MbtH-like protein CLD04_16570 SM00823 Phosphopantetheine attachment site CLD04_16570 SM00824 Thioesterase CLD04_16655 SM01240 CLD04_16655 CLD04_16755 SM00729 Elongator protein 3, MiaB family, Radical SAM CLD04_16835 SM01008 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain CLD04_16880 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_16890 SM00873 B3/4 domain CLD04_16905 SM00382 ATPases associated with a variety of cellular activities CLD04_16910 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_16910 SM00866 CLD04_16910 CLD04_16935 SM00465 GIY-YIG type nucleases (URI domain) CLD04_16980 SM00382 ATPases associated with a variety of cellular activities CLD04_17010 SM00382 ATPases associated with a variety of cellular activities CLD04_17010 SM00930 CLD04_17010 CLD04_17025 SM00493 CLD04_17025 CLD04_17080 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_17110 SM00382 ATPases associated with a variety of cellular activities CLD04_17135 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. CLD04_17140 SM00448 cheY-homologous receiver domain CLD04_17140 SM00862 Transcriptional regulatory protein, C terminal CLD04_17145 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_17145 SM00387 Histidine kinase-like ATPases CLD04_17145 SM00388 His Kinase A (phosphoacceptor) domain CLD04_17185 SM00421 helix_turn_helix, Lux Regulon CLD04_17185 SM00448 cheY-homologous receiver domain CLD04_17190 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_17190 SM00387 Histidine kinase-like ATPases CLD04_17225 SM00382 ATPases associated with a variety of cellular activities CLD04_17250 SM00387 Histidine kinase-like ATPases CLD04_17250 SM00388 His Kinase A (phosphoacceptor) domain CLD04_17255 SM00448 cheY-homologous receiver domain CLD04_17255 SM00862 Transcriptional regulatory protein, C terminal CLD04_17275 SM00835 Cupin CLD04_17290 SM00382 ATPases associated with a variety of cellular activities CLD04_17300 SM00382 ATPases associated with a variety of cellular activities CLD04_17475 SM00316 Ribosomal protein S1-like RNA-binding domain CLD04_17475 SM00357 Cold shock protein domain CLD04_17475 SM00955 CLD04_17475 CLD04_17495 SM00530 Helix-turn-helix XRE-family like proteins CLD04_17500 SM00530 Helix-turn-helix XRE-family like proteins CLD04_17505 SM00530 Helix-turn-helix XRE-family like proteins CLD04_17515 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). CLD04_17515 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_17535 SM00116 Domain in cystathionine beta-synthase and other proteins. CLD04_17535 SM00382 ATPases associated with a variety of cellular activities CLD04_17550 SM00752 Horizontally Transferred TransMembrane Domain CLD04_17565 SM00418 helix_turn_helix, Arsenical Resistance Operon Repressor CLD04_17585 SM00116 Domain in cystathionine beta-synthase and other proteins. CLD04_17585 SM00382 ATPases associated with a variety of cellular activities CLD04_17620 SM01192 CLD04_17620 CLD04_17620 SM01193 CLD04_17620 CLD04_17640 SM00846 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain CLD04_17655 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_17685 SM00636 CLD04_17685 CLD04_17740 SM00382 ATPases associated with a variety of cellular activities CLD04_17750 SM00331 Sigma factor PP2C-like phosphatases CLD04_17780 SM00354 helix_turn _helix lactose operon repressor CLD04_17785 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_17785 SM00895 CLD04_17785 CLD04_17880 SM00530 Helix-turn-helix XRE-family like proteins CLD04_17920 SM00640 Glycosyl hydrolases family 32 CLD04_17965 SM00642 Alpha-amylase domain CLD04_17995 SM00642 Alpha-amylase domain CLD04_18000 SM00354 helix_turn _helix lactose operon repressor CLD04_18020 SM00947 Carbonic anhydrase CLD04_18035 SM00382 ATPases associated with a variety of cellular activities CLD04_18040 SM00387 Histidine kinase-like ATPases CLD04_18045 SM00448 cheY-homologous receiver domain CLD04_18045 SM00862 Transcriptional regulatory protein, C terminal CLD04_18095 SM00028 Tetratricopeptide repeats CLD04_18100 SM00382 ATPases associated with a variety of cellular activities CLD04_18205 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_18205 SM00866 CLD04_18205 CLD04_18245 SM00382 ATPases associated with a variety of cellular activities CLD04_18250 SM00487 DEAD-like helicases superfamily CLD04_18250 SM00490 helicase superfamily c-terminal domain CLD04_18275 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. CLD04_18285 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. CLD04_18285 SM00245 tail specific protease CLD04_18295 SM00382 ATPases associated with a variety of cellular activities CLD04_18315 SM00957 SecA DEAD-like domain CLD04_18315 SM00958 SecA preprotein cross-linking domain CLD04_18415 SM00487 DEAD-like helicases superfamily CLD04_18415 SM00490 helicase superfamily c-terminal domain CLD04_18425 SM00421 helix_turn_helix, Lux Regulon CLD04_18425 SM00448 cheY-homologous receiver domain CLD04_18430 SM00387 Histidine kinase-like ATPases CLD04_18470 SM00984 UDP binding domain CLD04_18495 SM00646 CLD04_18495 CLD04_18540 SM00382 ATPases associated with a variety of cellular activities CLD04_18610 SM00047 Lysozyme subfamily 2 CLD04_18610 SM00287 Bacterial SH3 domain homologues CLD04_18665 SM00854 Bacterial capsule synthesis protein PGA_cap CLD04_18680 SM00354 helix_turn _helix lactose operon repressor CLD04_18695 SM00382 ATPases associated with a variety of cellular activities CLD04_18710 SM00287 Bacterial SH3 domain homologues CLD04_18765 SM00903 Flavin reductase like domain CLD04_18780 SM00344 helix_turn_helix ASNC type CLD04_18845 SM00984 UDP binding domain CLD04_18875 SM00487 DEAD-like helicases superfamily CLD04_18875 SM00490 helicase superfamily c-terminal domain CLD04_18890 SM00420 helix_turn_helix, Deoxyribose operon repressor CLD04_18890 SM01134 CLD04_18890 CLD04_18915 SM00387 Histidine kinase-like ATPases CLD04_18930 SM00028 Tetratricopeptide repeats CLD04_18960 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_18970 SM00710 Parallel beta-helix repeats CLD04_18970 SM00722 Domain present in carbohydrate binding proteins and sugar hydrolses CLD04_19000 SM00938 Nitrogen regulatory protein P-II CLD04_19005 SM00014 Acid phosphatase homologues CLD04_19035 SM00155 Phospholipase D. Active site motifs. CLD04_19040 SM00422 helix_turn_helix, mercury resistance CLD04_19075 SM00382 ATPases associated with a variety of cellular activities CLD04_19080 SM00382 ATPases associated with a variety of cellular activities CLD04_19110 SM00028 Tetratricopeptide repeats CLD04_19120 SM00729 Elongator protein 3, MiaB family, Radical SAM CLD04_19135 SM00327 von Willebrand factor (vWF) type A domain CLD04_19145 SM00327 von Willebrand factor (vWF) type A domain CLD04_19180 SM00382 ATPases associated with a variety of cellular activities CLD04_19240 SM00226 Low molecular weight phosphatase family CLD04_19280 SM00937 CLD04_19280 CLD04_19300 SM00919 Malic enzyme, NAD binding domain CLD04_19300 SM01274 CLD04_19300 CLD04_19315 SM00357 Cold shock protein domain CLD04_19315 SM00382 ATPases associated with a variety of cellular activities CLD04_19315 SM00959 Rho termination factor, N-terminal domain CLD04_19340 SM00448 cheY-homologous receiver domain CLD04_19380 SM00155 Phospholipase D. Active site motifs. CLD04_19400 SM00382 ATPases associated with a variety of cellular activities CLD04_19405 SM00155 Phospholipase D. Active site motifs. CLD04_19435 SM00926 Molybdopterin oxidoreductase Fe4S4 domain CLD04_19450 SM00100 Cyclic nucleotide-monophosphate binding domain CLD04_19450 SM00419 helix_turn_helix, cAMP Regulatory protein CLD04_19460 SM00836 DALR anticodon binding domain CLD04_19460 SM01016 Arginyl tRNA synthetase N terminal dom CLD04_19480 SM00729 Elongator protein 3, MiaB family, Radical SAM CLD04_19530 SM00028 Tetratricopeptide repeats CLD04_19580 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_19585 SM00863 Threonyl and Alanyl tRNA synthetase second additional domain CLD04_19605 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. CLD04_19700 SM00839 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase CLD04_19740 SM00858 CLD04_19740 CLD04_19795 SM00986 Uracil DNA glycosylase superfamily CLD04_19795 SM00987 UreE urease accessory protein, C-terminal domain CLD04_19830 SM00640 Glycosyl hydrolases family 32 CLD04_19845 SM01061 CAT RNA binding domain CLD04_20000 SM00359 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase CLD04_20025 SM01061 CAT RNA binding domain CLD04_20040 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_20055 SM00530 Helix-turn-helix XRE-family like proteins CLD04_20070 SM00954 Region found in RelA / SpoT proteins CLD04_20165 SM01060 CLD04_20165 CLD04_20180 SM00382 ATPases associated with a variety of cellular activities CLD04_20215 SM00382 ATPases associated with a variety of cellular activities CLD04_20220 SM00382 ATPases associated with a variety of cellular activities CLD04_20255 SM00382 ATPases associated with a variety of cellular activities CLD04_20295 SM00421 helix_turn_helix, Lux Regulon CLD04_20295 SM00448 cheY-homologous receiver domain CLD04_20330 SM00882 Coenzyme A transferase CLD04_20335 SM00882 Coenzyme A transferase CLD04_20355 SM00155 Phospholipase D. Active site motifs. CLD04_20475 SM01060 CLD04_20475 CLD04_20510 SM00487 DEAD-like helicases superfamily CLD04_20510 SM00490 helicase superfamily c-terminal domain CLD04_20655 SM00941 Pyrimidine nucleoside phosphorylase C-terminal domain CLD04_20665 SM01133 CLD04_20665 CLD04_20695 SM00382 ATPases associated with a variety of cellular activities CLD04_20705 SM00062 Bacterial periplasmic substrate-binding proteins CLD04_20770 SM00382 ATPases associated with a variety of cellular activities CLD04_20775 SM00387 Histidine kinase-like ATPases CLD04_20780 SM00448 cheY-homologous receiver domain CLD04_20780 SM00862 Transcriptional regulatory protein, C terminal CLD04_20835 SM00420 helix_turn_helix, Deoxyribose operon repressor CLD04_20835 SM01134 CLD04_20835 CLD04_20860 SM00387 Histidine kinase-like ATPases CLD04_20890 SM00564 beta-propeller repeat CLD04_20925 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_20955 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_20955 SM00895 CLD04_20955 CLD04_20970 SM01350 CLD04_20970 CLD04_21000 SM00345 helix_turn_helix gluconate operon transcriptional repressor CLD04_21000 SM00866 CLD04_21000 CLD04_21015 SM00382 ATPases associated with a variety of cellular activities CLD04_21025 SM00507 HNH nucleases CLD04_21105 SM00382 ATPases associated with a variety of cellular activities CLD04_21110 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_21110 SM00387 Histidine kinase-like ATPases CLD04_21110 SM00388 His Kinase A (phosphoacceptor) domain CLD04_21115 SM00448 cheY-homologous receiver domain CLD04_21115 SM00862 Transcriptional regulatory protein, C terminal CLD04_21130 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. CLD04_21135 SM00849 Metallo-beta-lactamase superfamily CLD04_21150 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) CLD04_21150 SM00091 PAS domain CLD04_21150 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain CLD04_21150 SM00387 Histidine kinase-like ATPases CLD04_21150 SM00388 His Kinase A (phosphoacceptor) domain CLD04_21155 SM00448 cheY-homologous receiver domain CLD04_21155 SM00862 Transcriptional regulatory protein, C terminal CLD04_21180 SM00788 Adenylosuccinate synthetase CLD04_21190 SM00382 ATPases associated with a variety of cellular activities CLD04_21225 SM00267 diguanylate cyclase CLD04_21250 SM01131 CLD04_21250 CLD04_21315 SM00849 Metallo-beta-lactamase superfamily CLD04_21320 SM00347 helix_turn_helix multiple antibiotic resistance protein CLD04_21355 SM00226 Low molecular weight phosphatase family CLD04_21370 SM00418 helix_turn_helix, Arsenical Resistance Operon Repressor CLD04_21405 SM01266 CLD04_21405 CLD04_21415 SM00354 helix_turn _helix lactose operon repressor CLD04_21445 SM00926 Molybdopterin oxidoreductase Fe4S4 domain CLD04_21465 SM00470 ParB-like nuclease domain CLD04_21480 SM00470 ParB-like nuclease domain CLD04_21490 SM01228 CLD04_21490 CLD04_21500 SM00322 K homology RNA-binding domain CLD04_21500 SM00393 Putative single-stranded nucleic acids-binding domain CLD04_21500 SM01245 CLD04_21500