BER93_00005 SM00382 ATPases associated with a variety of cellular activities BER93_00005 SM00760 Bacterial dnaA protein helix-turn-helix domain BER93_00010 SM00480 DNA polymerase III beta subunit BER93_00025 SM00387 Histidine kinase-like ATPases BER93_00025 SM00433 TopoisomeraseII BER93_00040 SM00028 Tetratricopeptide repeats BER93_00085 SM00155 Phospholipase D. Active site motifs. BER93_00120 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. BER93_00120 SM00245 tail specific protease BER93_00200 SM00487 DEAD-like helicases superfamily BER93_00200 SM00490 helicase superfamily c-terminal domain BER93_00220 SM00986 Uracil DNA glycosylase superfamily BER93_00220 SM00987 UreE urease accessory protein, C-terminal domain BER93_00225 SM00448 cheY-homologous receiver domain BER93_00235 SM00382 ATPases associated with a variety of cellular activities BER93_00240 SM00487 DEAD-like helicases superfamily BER93_00240 SM00490 helicase superfamily c-terminal domain BER93_00250 SM00357 Cold shock protein domain BER93_00250 SM00382 ATPases associated with a variety of cellular activities BER93_00250 SM00959 Rho termination factor, N-terminal domain BER93_00280 SM00257 Lysin motif BER93_00320 SM01150 BER93_00320 BER93_00400 SM00563 Phosphate acyltransferases BER93_00405 SM00829 Enoylreductase BER93_00510 SM00487 DEAD-like helicases superfamily BER93_00510 SM00490 helicase superfamily c-terminal domain BER93_00520 SM00326 Src homology 3 domains BER93_00525 SM00861 Transketolase, pyrimidine binding domain BER93_00555 SM00347 helix_turn_helix multiple antibiotic resistance protein BER93_00605 SM00382 ATPases associated with a variety of cellular activities BER93_00625 SM00382 ATPases associated with a variety of cellular activities BER93_00985 SM00257 Lysin motif BER93_01010 SM00436 Bacterial DNA topoisomeraes I ATP-binding domain BER93_01010 SM00437 Bacterial DNA topoisomerase I DNA-binding domain BER93_01010 SM00493 BER93_01010 BER93_01065 SM00564 beta-propeller repeat BER93_01085 SM00387 Histidine kinase-like ATPases BER93_01085 SM00388 His Kinase A (phosphoacceptor) domain BER93_01085 SM00448 cheY-homologous receiver domain BER93_01095 SM00346 helix_turn_helix isocitrate lyase regulation BER93_01110 SM00922 Mandelate racemase / muconate lactonizing enzyme, C-terminal domain BER93_01135 SM00421 helix_turn_helix, Lux Regulon BER93_01135 SM00448 cheY-homologous receiver domain BER93_01210 SM00155 Phospholipase D. Active site motifs. BER93_01380 SM01060 BER93_01380 BER93_01415 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. BER93_01435 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain BER93_01435 SM00387 Histidine kinase-like ATPases BER93_01435 SM00388 His Kinase A (phosphoacceptor) domain BER93_01440 SM00448 cheY-homologous receiver domain BER93_01440 SM00862 Transcriptional regulatory protein, C terminal BER93_01550 SM00052 Putative diguanylate phosphodiesterase BER93_01565 SM00382 ATPases associated with a variety of cellular activities BER93_01575 SM00938 Nitrogen regulatory protein P-II BER93_01630 SM00279 Helix-hairpin-helix class 2 (Pol1 family) motifs BER93_01630 SM00474 3'-5' exonuclease BER93_01630 SM00475 5'-3' exonuclease BER93_01630 SM00482 DNA polymerase A domain BER93_01685 SM00563 Phosphate acyltransferases BER93_01720 SM00822 BER93_01720 BER93_01740 SM00825 Beta-ketoacyl synthase BER93_01750 SM00248 ankyrin repeats BER93_01755 SM00226 Low molecular weight phosphatase family BER93_01775 SM01057 Eukaryotic-type carbonic anhydrase BER93_01780 SM00116 Domain in cystathionine beta-synthase and other proteins. BER93_01780 SM00924 MgtE intracellular N domain BER93_01785 SM00881 CoA binding domain BER93_01825 SM00487 DEAD-like helicases superfamily BER93_01825 SM00490 helicase superfamily c-terminal domain BER93_02080 SM00450 Rhodanese Homology Domain BER93_02150 SM00967 RNA 2'-O ribose methyltransferase substrate binding BER93_02180 SM00838 Elongation factor G C-terminus BER93_02230 SM00829 Enoylreductase BER93_02275 SM00382 ATPases associated with a variety of cellular activities BER93_02285 SM00829 Enoylreductase BER93_02300 SM00855 Phosphoglycerate mutase family BER93_02315 SM00528 Domain in histone-like proteins of HNS family BER93_02320 SM00642 Alpha-amylase domain BER93_02345 SM00448 cheY-homologous receiver domain BER93_02345 SM00862 Transcriptional regulatory protein, C terminal BER93_02350 SM00387 Histidine kinase-like ATPases BER93_02350 SM00388 His Kinase A (phosphoacceptor) domain BER93_02455 SM00829 Enoylreductase BER93_02570 SM00065 Domain present in phytochromes and cGMP-specific phosphodiesterases. BER93_02570 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) BER93_02570 SM00091 PAS domain BER93_02570 SM00267 diguanylate cyclase BER93_02585 SM00637 BER93_02585 BER93_02615 SM00448 cheY-homologous receiver domain BER93_02615 SM00850 LytTr DNA-binding domain BER93_02690 SM00382 ATPases associated with a variety of cellular activities BER93_02690 SM01086 C-terminal, D2-small domain, of ClpB protein BER93_02720 SM00267 diguanylate cyclase BER93_02725 SM01263 BER93_02725 BER93_02745 SM00268 Actin BER93_02770 SM00710 Parallel beta-helix repeats BER93_02785 SM00936 Penicillin-binding protein 5, C-terminal domain BER93_02805 SM00729 Elongator protein 3, MiaB family, Radical SAM BER93_02830 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. BER93_02830 SM00245 tail specific protease BER93_02875 SM01350 BER93_02875 BER93_02885 SM00749 bacterial OsmY and nodulation domain BER93_02890 SM00387 Histidine kinase-like ATPases BER93_02890 SM00388 His Kinase A (phosphoacceptor) domain BER93_02895 SM00448 cheY-homologous receiver domain BER93_02900 SM00387 Histidine kinase-like ATPases BER93_02900 SM00388 His Kinase A (phosphoacceptor) domain BER93_02900 SM00448 cheY-homologous receiver domain BER93_02955 SM00345 helix_turn_helix gluconate operon transcriptional repressor BER93_02955 SM00866 BER93_02955 BER93_02965 SM00354 helix_turn _helix lactose operon repressor BER93_02990 SM00829 Enoylreductase BER93_03080 SM00450 Rhodanese Homology Domain BER93_03105 SM00382 ATPases associated with a variety of cellular activities BER93_03135 SM01154 BER93_03135 BER93_03140 SM00642 Alpha-amylase domain BER93_03155 SM00354 helix_turn _helix lactose operon repressor BER93_03160 SM00822 BER93_03160 BER93_03175 SM00448 cheY-homologous receiver domain BER93_03175 SM00862 Transcriptional regulatory protein, C terminal BER93_03180 SM00387 Histidine kinase-like ATPases BER93_03180 SM00388 His Kinase A (phosphoacceptor) domain BER93_03190 SM00421 helix_turn_helix, Lux Regulon BER93_03190 SM00448 cheY-homologous receiver domain BER93_03225 SM00387 Histidine kinase-like ATPases BER93_03225 SM00388 His Kinase A (phosphoacceptor) domain BER93_03225 SM00448 cheY-homologous receiver domain BER93_03240 SM00919 Malic enzyme, NAD binding domain BER93_03240 SM01274 BER93_03240 BER93_03305 SM01329 BER93_03305 BER93_03320 SM00917 LeuA allosteric (dimerisation) domain BER93_03365 SM00862 Transcriptional regulatory protein, C terminal BER93_03375 SM00342 helix_turn_helix, arabinose operon control protein BER93_03435 SM00464 Found in ATP-dependent protease La (LON) BER93_03540 SM01011 Aminopeptidase P, N-terminal domain BER93_03560 SM00729 Elongator protein 3, MiaB family, Radical SAM BER93_03580 SM00072 Guanylate kinase homologues. BER93_03585 SM01409 BER93_03585 BER93_03590 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. BER93_03590 SM00954 Region found in RelA / SpoT proteins BER93_03600 SM00487 DEAD-like helicases superfamily BER93_03600 SM00490 helicase superfamily c-terminal domain BER93_03655 SM00965 Secretin and TonB N terminus short domain BER93_03795 SM00842 Cell division protein FtsA BER93_03800 SM00864 Tubulin/FtsZ family, GTPase domain BER93_03800 SM00865 Tubulin/FtsZ family, C-terminal domain BER93_03820 SM00957 SecA DEAD-like domain BER93_03820 SM00958 SecA preprotein cross-linking domain BER93_03850 SM00829 Enoylreductase BER93_03925 SM00382 ATPases associated with a variety of cellular activities BER93_03925 SM00448 cheY-homologous receiver domain BER93_03930 SM00387 Histidine kinase-like ATPases BER93_03930 SM00388 His Kinase A (phosphoacceptor) domain BER93_03940 SM00881 CoA binding domain BER93_04070 SM00363 S4 RNA-binding domain BER93_04075 SM00448 cheY-homologous receiver domain BER93_04085 SM00341 Helicase and RNase D C-terminal BER93_04085 SM00487 DEAD-like helicases superfamily BER93_04085 SM00490 helicase superfamily c-terminal domain BER93_04085 SM00956 BER93_04085 BER93_04095 SM00382 ATPases associated with a variety of cellular activities BER93_04095 SM00487 DEAD-like helicases superfamily BER93_04095 SM00490 helicase superfamily c-terminal domain BER93_04095 SM00847 Helicase associated domain (HA2) Add an annotation BER93_04120 SM00954 Region found in RelA / SpoT proteins BER93_04145 SM00491 BER93_04145 BER93_04165 SM00448 cheY-homologous receiver domain BER93_04170 SM00448 cheY-homologous receiver domain BER93_04175 SM00260 Two component signalling adaptor domain BER93_04180 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). BER93_04185 SM00073 Histidine Phosphotransfer domain BER93_04185 SM00260 Two component signalling adaptor domain BER93_04185 SM00387 Histidine kinase-like ATPases BER93_04185 SM00448 cheY-homologous receiver domain BER93_04185 SM01231 BER93_04185 BER93_04220 SM00369 Leucine-rich repeats, typical (most populated) subfamily BER93_04235 SM00812 Alpha-L-fucosidase BER93_04275 SM00860 SMI1 / KNR4 family BER93_04335 SM01211 BER93_04335 BER93_04355 SM00382 ATPases associated with a variety of cellular activities BER93_04415 SM00345 helix_turn_helix gluconate operon transcriptional repressor BER93_04415 SM00866 BER93_04415 BER93_04470 SM00382 ATPases associated with a variety of cellular activities BER93_04555 SM00996 S-adenosyl-L-homocysteine hydrolase BER93_04555 SM00997 S-adenosyl-L-homocysteine hydrolase, NAD binding domain BER93_04625 SM00387 Histidine kinase-like ATPases BER93_04625 SM00388 His Kinase A (phosphoacceptor) domain BER93_04630 SM00448 cheY-homologous receiver domain BER93_04630 SM00862 Transcriptional regulatory protein, C terminal BER93_04640 SM00382 ATPases associated with a variety of cellular activities BER93_04735 SM00650 Ribosomal RNA adenine dimethylases BER93_04855 SM00421 helix_turn_helix, Lux Regulon BER93_04915 SM00279 Helix-hairpin-helix class 2 (Pol1 family) motifs BER93_04915 SM00475 5'-3' exonuclease BER93_05015 SM00852 Probable molybdopterin binding domain BER93_05020 SM00028 Tetratricopeptide repeats BER93_05025 SM00937 BER93_05025 BER93_05035 SM00028 Tetratricopeptide repeats BER93_05055 SM01400 BER93_05055 BER93_05105 SM00738 In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold. BER93_05105 SM00739 KOW (Kyprides, Ouzounis, Woese) motif. BER93_05110 SM00649 Ribosomal protein L11/L12 BER93_05135 SM00663 RNA polymerase I subunit A N-terminus BER93_05150 SM00838 Elongation factor G C-terminus BER93_05150 SM00889 Elongation factor G, domain IV BER93_05160 SM01403 BER93_05160 BER93_05180 SM01382 BER93_05180 BER93_05180 SM01383 BER93_05180 BER93_05195 SM00322 K homology RNA-binding domain BER93_05215 SM01374 BER93_05215 BER93_05220 SM00739 KOW (Kyprides, Ouzounis, Woese) motif. BER93_05280 SM00363 S4 RNA-binding domain BER93_05280 SM01390 BER93_05280 BER93_05285 SM00662 RNA polymerases D BER93_05375 SM00869 Autotransporter beta-domain BER93_05410 SM00530 Helix-turn-helix XRE-family like proteins BER93_05445 SM00267 diguanylate cyclase BER93_05515 SM00530 Helix-turn-helix XRE-family like proteins BER93_05545 SM00382 ATPases associated with a variety of cellular activities BER93_05620 SM00855 Phosphoglycerate mutase family BER93_05660 SM00052 Putative diguanylate phosphodiesterase BER93_05665 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. BER93_05800 SM00116 Domain in cystathionine beta-synthase and other proteins. BER93_05870 SM00867 YceI-like domain BER93_05880 SM00867 YceI-like domain BER93_05885 SM00387 Histidine kinase-like ATPases BER93_05885 SM00388 His Kinase A (phosphoacceptor) domain BER93_05885 SM00448 cheY-homologous receiver domain BER93_05910 SM00382 ATPases associated with a variety of cellular activities BER93_05910 SM00962 SRP54-type protein, GTPase domain BER93_05910 SM00963 SRP54-type protein, helical bundle domain BER93_05955 SM00363 S4 RNA-binding domain BER93_05985 SM00267 diguanylate cyclase BER93_06000 SM00863 Threonyl and Alanyl tRNA synthetase second additional domain BER93_06025 SM00873 B3/4 domain BER93_06025 SM00874 tRNA synthetase B5 domain BER93_06025 SM00896 Ferredoxin-fold anticodon binding domain BER93_06030 SM00411 bacterial (prokaryotic) histone like domain BER93_06035 SM00422 helix_turn_helix, mercury resistance BER93_06110 SM00861 Transketolase, pyrimidine binding domain BER93_06120 SM00507 HNH nucleases BER93_06195 SM00478 endonuclease III BER93_06200 SM00382 ATPases associated with a variety of cellular activities BER93_06200 SM00962 SRP54-type protein, GTPase domain BER93_06200 SM00963 SRP54-type protein, helical bundle domain BER93_06205 SM00342 helix_turn_helix, arabinose operon control protein BER93_06230 SM01130 BER93_06230 BER93_06290 SM00944 Pro-kumamolisin, activation domain BER93_06370 SM00481 DNA polymerase alpha chain like domain BER93_06410 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. BER93_06465 SM00972 Spore Coat Protein U domain BER93_06480 SM00972 Spore Coat Protein U domain BER93_06490 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. BER93_06510 SM01172 BER93_06510 BER93_06515 SM00710 Parallel beta-helix repeats BER93_06515 SM00722 Domain present in carbohydrate binding proteins and sugar hydrolses BER93_06545 SM00434 DNA Topoisomerase IV BER93_06550 SM00347 helix_turn_helix multiple antibiotic resistance protein BER93_06605 SM00347 helix_turn_helix multiple antibiotic resistance protein BER93_06630 SM00382 ATPases associated with a variety of cellular activities BER93_06640 SM00947 Carbonic anhydrase BER93_06660 SM00357 Cold shock protein domain BER93_06760 SM00530 Helix-turn-helix XRE-family like proteins BER93_06810 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. BER93_06855 SM00116 Domain in cystathionine beta-synthase and other proteins. BER93_06855 SM01091 Transporter associated domain BER93_06875 SM00729 Elongator protein 3, MiaB family, Radical SAM BER93_06920 SM00487 DEAD-like helicases superfamily BER93_06920 SM00490 helicase superfamily c-terminal domain BER93_06940 SM00528 Domain in histone-like proteins of HNS family BER93_06955 SM00474 3'-5' exonuclease BER93_06975 SM00838 Elongation factor G C-terminus BER93_06990 SM00358 Double-stranded RNA binding motif BER93_06990 SM00535 Ribonuclease III family BER93_07005 SM00448 cheY-homologous receiver domain BER93_07015 SM01118 BER93_07015 BER93_07045 SM00357 Cold shock protein domain BER93_07055 SM00487 DEAD-like helicases superfamily BER93_07055 SM00490 helicase superfamily c-terminal domain BER93_07110 SM00839 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase BER93_07145 SM00257 Lysin motif BER93_07225 SM00052 Putative diguanylate phosphodiesterase BER93_07225 SM00267 diguanylate cyclase BER93_07225 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain BER93_07240 SM00822 BER93_07240 BER93_07285 SM00928 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region BER93_07290 SM00929 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region BER93_07340 SM00316 Ribosomal protein S1-like RNA-binding domain BER93_07340 SM00322 K homology RNA-binding domain BER93_07360 SM01387 BER93_07360 BER93_07365 SM00316 Ribosomal protein S1-like RNA-binding domain BER93_07365 SM00322 K homology RNA-binding domain BER93_07395 SM01001 AIR carboxylase BER93_07460 SM00448 cheY-homologous receiver domain BER93_07460 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. BER93_07465 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) BER93_07465 SM00091 PAS domain BER93_07465 SM00387 Histidine kinase-like ATPases BER93_07465 SM00388 His Kinase A (phosphoacceptor) domain BER93_07465 SM00448 cheY-homologous receiver domain BER93_07465 SM01079 BER93_07465 BER93_07530 SM01230 BER93_07530 BER93_07535 SM01230 BER93_07535 BER93_07560 SM00382 ATPases associated with a variety of cellular activities BER93_07585 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) BER93_07585 SM00091 PAS domain BER93_07585 SM00911 HWE histidine kinase BER93_07715 SM00487 DEAD-like helicases superfamily BER93_07715 SM00490 helicase superfamily c-terminal domain BER93_07770 SM00382 ATPases associated with a variety of cellular activities BER93_07835 SM00382 ATPases associated with a variety of cellular activities BER93_07920 SM00530 Helix-turn-helix XRE-family like proteins BER93_08005 SM00271 DnaJ molecular chaperone homology domain BER93_08050 SM00382 ATPases associated with a variety of cellular activities BER93_08075 SM00861 Transketolase, pyrimidine binding domain BER93_08085 SM00558 A domain family that is part of the cupin metalloenzyme superfamily. BER93_08145 SM00382 ATPases associated with a variety of cellular activities BER93_08150 SM00345 helix_turn_helix gluconate operon transcriptional repressor BER93_08170 SM00984 UDP binding domain BER93_08190 SM00354 helix_turn _helix lactose operon repressor BER93_08210 SM01018 B12 binding domain BER93_08220 SM00418 helix_turn_helix, Arsenical Resistance Operon Repressor BER93_08240 SM00316 Ribosomal protein S1-like RNA-binding domain BER93_08240 SM00357 Cold shock protein domain BER93_08240 SM00955 BER93_08240 BER93_08245 SM00967 RNA 2'-O ribose methyltransferase substrate binding BER93_08255 SM00479 BER93_08255 BER93_08265 SM00382 ATPases associated with a variety of cellular activities BER93_08310 SM00947 Carbonic anhydrase BER93_08320 SM00478 endonuclease III BER93_08345 SM00450 Rhodanese Homology Domain BER93_08355 SM00644 BER93_08355 BER93_08380 SM00981 BER93_08380 BER93_08410 SM00479 BER93_08410 BER93_08435 SM00947 Carbonic anhydrase BER93_08485 SM00968 SMC proteins Flexible Hinge Domain BER93_08490 SM00771 ZipA, C-terminal domain (FtsZ-binding) BER93_08495 SM00292 breast cancer carboxy-terminal domain BER93_08495 SM00532 Ligase N family BER93_08520 SM00434 DNA Topoisomerase IV BER93_08560 SM00345 helix_turn_helix gluconate operon transcriptional repressor BER93_08560 SM00866 BER93_08560 BER93_08575 SM00240 Forkhead associated domain BER93_08615 SM00859 Semialdehyde dehydrogenase, NAD binding domain BER93_08625 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). BER93_08625 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain BER93_08630 SM00382 ATPases associated with a variety of cellular activities BER93_08635 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) BER93_08635 SM00091 PAS domain BER93_08635 SM00387 Histidine kinase-like ATPases BER93_08635 SM00388 His Kinase A (phosphoacceptor) domain BER93_08635 SM00448 cheY-homologous receiver domain BER93_08725 SM00116 Domain in cystathionine beta-synthase and other proteins. BER93_08725 SM01091 Transporter associated domain BER93_08750 SM00387 Histidine kinase-like ATPases BER93_08750 SM00433 TopoisomeraseII BER93_08770 SM01192 BER93_08770 BER93_08770 SM01193 BER93_08770 BER93_08795 SM00463 Small MutS-related domain BER93_08815 SM00257 Lysin motif BER93_08905 SM00382 ATPases associated with a variety of cellular activities BER93_08930 SM00363 S4 RNA-binding domain BER93_08955 SM00354 helix_turn _helix lactose operon repressor BER93_09030 SM00316 Ribosomal protein S1-like RNA-binding domain BER93_09035 SM00411 bacterial (prokaryotic) histone like domain BER93_09045 SM00028 Tetratricopeptide repeats BER93_09055 SM00822 BER93_09055 BER93_09105 SM00116 Domain in cystathionine beta-synthase and other proteins. BER93_09105 SM01240 BER93_09105 BER93_09290 SM01007 Class II Aldolase and Adducin N-terminal domain BER93_09330 SM00841 Elongation factor P, C-terminal BER93_09330 SM01185 BER93_09330 BER93_09335 SM00822 BER93_09335 BER93_09350 SM00899 BER93_09350 BER93_09375 SM01097 Carbamoyl-phosphate synthase small chain, CPSase domain BER93_09390 SM00851 MGS-like domain BER93_09390 SM01096 Carbamoyl-phosphate synthetase large chain, oligomerisation domain BER93_09410 SM00937 BER93_09410 BER93_09420 SM00448 cheY-homologous receiver domain BER93_09420 SM00471 Metal dependent phosphohydrolases with conserved 'HD' motif. BER93_09430 SM00073 Histidine Phosphotransfer domain BER93_09430 SM00387 Histidine kinase-like ATPases BER93_09430 SM00388 His Kinase A (phosphoacceptor) domain BER93_09430 SM00448 cheY-homologous receiver domain BER93_09455 SM00966 SpoVT / AbrB like domain BER93_09475 SM00052 Putative diguanylate phosphodiesterase BER93_09475 SM00065 Domain present in phytochromes and cGMP-specific phosphodiesterases. BER93_09475 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) BER93_09475 SM00091 PAS domain BER93_09475 SM00267 diguanylate cyclase BER93_09480 SM00448 cheY-homologous receiver domain BER93_09490 SM00138 Methyltransferase, chemotaxis proteins BER93_09500 SM00260 Two component signalling adaptor domain BER93_09510 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). BER93_09510 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain BER93_09520 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). BER93_09520 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain BER93_09525 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). BER93_09525 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain BER93_09535 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). BER93_09535 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain BER93_09560 SM00073 Histidine Phosphotransfer domain BER93_09560 SM00260 Two component signalling adaptor domain BER93_09560 SM00387 Histidine kinase-like ATPases BER93_09560 SM01231 BER93_09560 BER93_09565 SM00448 cheY-homologous receiver domain BER93_09575 SM00260 Two component signalling adaptor domain BER93_09750 SM00363 S4 RNA-binding domain BER93_09755 SM00316 Ribosomal protein S1-like RNA-binding domain BER93_09760 SM00421 helix_turn_helix, Lux Regulon BER93_09760 SM00448 cheY-homologous receiver domain BER93_09765 SM00450 Rhodanese Homology Domain BER93_09785 SM00984 UDP binding domain BER93_09855 SM00382 ATPases associated with a variety of cellular activities BER93_09855 SM01086 C-terminal, D2-small domain, of ClpB protein BER93_10055 SM00852 Probable molybdopterin binding domain BER93_10075 SM00450 Rhodanese Homology Domain BER93_10080 SM00852 Probable molybdopterin binding domain BER93_10085 SM00382 ATPases associated with a variety of cellular activities BER93_10090 SM00564 beta-propeller repeat BER93_10105 SM00028 Tetratricopeptide repeats BER93_10115 SM00562 BER93_10115 BER93_10145 SM00382 ATPases associated with a variety of cellular activities BER93_10160 SM00382 ATPases associated with a variety of cellular activities BER93_10160 SM00843 BER93_10160 BER93_10180 SM00316 Ribosomal protein S1-like RNA-binding domain BER93_10185 SM00382 ATPases associated with a variety of cellular activities BER93_10185 SM01086 C-terminal, D2-small domain, of ClpB protein BER93_10210 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). BER93_10230 SM00091 PAS domain BER93_10230 SM00387 Histidine kinase-like ATPases BER93_10235 SM00052 Putative diguanylate phosphodiesterase BER93_10235 SM00267 diguanylate cyclase BER93_10235 SM00448 cheY-homologous receiver domain BER93_10240 SM00387 Histidine kinase-like ATPases BER93_10255 SM00858 BER93_10255 BER93_10260 SM00260 Two component signalling adaptor domain BER93_10260 SM00448 cheY-homologous receiver domain BER93_10305 SM00047 Lysozyme subfamily 2 BER93_10345 SM00421 helix_turn_helix, Lux Regulon BER93_10345 SM00448 cheY-homologous receiver domain BER93_10355 SM00448 cheY-homologous receiver domain BER93_10360 SM00382 ATPases associated with a variety of cellular activities BER93_10400 SM00382 ATPases associated with a variety of cellular activities BER93_10455 SM00267 diguanylate cyclase BER93_10460 SM00267 diguanylate cyclase BER93_10475 SM00382 ATPases associated with a variety of cellular activities BER93_10475 SM00962 SRP54-type protein, GTPase domain BER93_10490 SM00448 cheY-homologous receiver domain BER93_10500 SM00073 Histidine Phosphotransfer domain BER93_10500 SM00260 Two component signalling adaptor domain BER93_10500 SM00387 Histidine kinase-like ATPases BER93_10500 SM01231 BER93_10500 BER93_10565 SM00869 Autotransporter beta-domain BER93_10725 SM00014 Acid phosphatase homologues BER93_10735 SM00387 Histidine kinase-like ATPases BER93_10740 SM00448 cheY-homologous receiver domain BER93_10750 SM00052 Putative diguanylate phosphodiesterase BER93_10750 SM00065 Domain present in phytochromes and cGMP-specific phosphodiesterases. BER93_10750 SM00267 diguanylate cyclase BER93_10900 SM00758 BER93_10900 BER93_10955 SM00922 Mandelate racemase / muconate lactonizing enzyme, C-terminal domain BER93_10980 SM01130 BER93_10980 BER93_11000 SM00670 Large family of predicted nucleotide-binding domains BER93_11055 SM00863 Threonyl and Alanyl tRNA synthetase second additional domain BER93_11065 SM00382 ATPases associated with a variety of cellular activities BER93_11210 SM00382 ATPases associated with a variety of cellular activities BER93_11220 SM01103 BER93_11220 BER93_11505 SM00278 Helix-hairpin-helix DNA-binding motif class 1 BER93_11505 SM00465 GIY-YIG type nucleases (URI domain) BER93_11530 SM00382 ATPases associated with a variety of cellular activities BER93_11545 SM00849 Metallo-beta-lactamase superfamily BER93_11555 SM00382 ATPases associated with a variety of cellular activities BER93_11605 SM00382 ATPases associated with a variety of cellular activities BER93_11680 SM00448 cheY-homologous receiver domain BER93_11685 SM00065 Domain present in phytochromes and cGMP-specific phosphodiesterases. BER93_11685 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) BER93_11685 SM00091 PAS domain BER93_11685 SM00387 Histidine kinase-like ATPases BER93_11685 SM00388 His Kinase A (phosphoacceptor) domain BER93_11685 SM00448 cheY-homologous receiver domain BER93_11690 SM00316 Ribosomal protein S1-like RNA-binding domain BER93_11690 SM00732 Likely ribonuclease with RNase H fold. BER93_11755 SM00479 BER93_11755 BER93_11765 SM00529 Helix-turn-helix diphteria tox regulatory element BER93_11870 SM00359 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase BER93_11890 SM00859 Semialdehyde dehydrogenase, NAD binding domain BER93_11925 SM00840 BER93_11925 BER93_11945 SM01234 BER93_11945 BER93_11980 SM00656 BER93_11980 BER93_12015 SM00841 Elongation factor P, C-terminal BER93_12015 SM01185 BER93_12015 BER93_12050 SM00382 ATPases associated with a variety of cellular activities BER93_12055 SM00382 ATPases associated with a variety of cellular activities BER93_12055 SM00487 DEAD-like helicases superfamily BER93_12055 SM00490 helicase superfamily c-terminal domain BER93_12080 SM00357 Cold shock protein domain BER93_12090 SM01322 BER93_12090 BER93_12100 SM00052 Putative diguanylate phosphodiesterase BER93_12100 SM00267 diguanylate cyclase BER93_12115 SM00822 BER93_12115 BER93_12135 SM00853 MutL C terminal dimerisation domain BER93_12135 SM01340 BER93_12135 BER93_12140 SM00646 BER93_12140 BER93_12265 SM00828 Methyltransferase in polyketide synthase (PKS) enzymes. BER93_12390 SM00729 Elongator protein 3, MiaB family, Radical SAM BER93_12445 SM01160 BER93_12445 BER93_12555 SM00830 Chorismate mutase type II BER93_12570 SM00354 helix_turn _helix lactose operon repressor BER93_12605 SM01323 BER93_12605 BER93_12620 SM00344 helix_turn_helix ASNC type BER93_12685 SM00387 Histidine kinase-like ATPases BER93_12730 SM00098 Alkaline phosphatase homologues BER93_12735 SM00977 TilS substrate C-terminal domain BER93_12785 SM00316 Ribosomal protein S1-like RNA-binding domain BER93_12905 SM00382 ATPases associated with a variety of cellular activities BER93_13050 SM00382 ATPases associated with a variety of cellular activities BER93_13085 SM00363 S4 RNA-binding domain BER93_13095 SM00052 Putative diguanylate phosphodiesterase BER93_13095 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) BER93_13095 SM00091 PAS domain BER93_13095 SM00267 diguanylate cyclase BER93_13100 SM00487 DEAD-like helicases superfamily BER93_13100 SM00490 helicase superfamily c-terminal domain BER93_13170 SM00926 Molybdopterin oxidoreductase Fe4S4 domain BER93_13170 SM00929 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region BER93_13245 SM00645 Papain family cysteine protease BER93_13260 SM00487 DEAD-like helicases superfamily BER93_13260 SM00490 helicase superfamily c-terminal domain BER93_13260 SM00982 BER93_13260 BER93_13260 SM01058 CarD-like/TRCF domain BER93_13265 SM00533 DNA-binding domain of DNA mismatch repair MUTS family BER93_13265 SM00534 ATPase domain of DNA mismatch repair MUTS family BER93_13305 SM00855 Phosphoglycerate mutase family BER93_13380 SM00267 diguanylate cyclase BER93_13450 SM00732 Likely ribonuclease with RNase H fold. BER93_13485 SM00382 ATPases associated with a variety of cellular activities BER93_13500 SM00411 bacterial (prokaryotic) histone like domain BER93_13520 SM00317 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain BER93_13535 SM00382 ATPases associated with a variety of cellular activities BER93_13565 SM00702 Prolyl 4-hydroxylase alpha subunit homologues. BER93_13570 SM00671 Sel1-like repeats. BER93_13680 SM00116 Domain in cystathionine beta-synthase and other proteins. BER93_13700 SM00382 ATPases associated with a variety of cellular activities BER93_13745 SM00924 MgtE intracellular N domain BER93_13790 SM00812 Alpha-L-fucosidase BER93_13795 SM00636 BER93_13795 BER93_13810 SM00758 BER93_13810 BER93_13810 SM01217 BER93_13810 BER93_13875 SM00788 Adenylosuccinate synthetase BER93_13885 SM00244 prohibitin homologues BER93_13890 SM00244 prohibitin homologues BER93_13895 SM00448 cheY-homologous receiver domain BER93_13900 SM00271 DnaJ molecular chaperone homology domain BER93_13980 SM00382 ATPases associated with a variety of cellular activities BER93_14030 SM00825 Beta-ketoacyl synthase BER93_14040 SM00822 BER93_14040 BER93_14045 SM00827 Acyl transferase domain in polyketide synthase (PKS) enzymes. BER93_14085 SM00382 ATPases associated with a variety of cellular activities BER93_14095 SM00460 Transglutaminase/protease-like homologues BER93_14110 SM00493 BER93_14110 BER93_14120 SM00382 ATPases associated with a variety of cellular activities BER93_14150 SM00729 Elongator protein 3, MiaB family, Radical SAM BER93_14155 SM00849 Metallo-beta-lactamase superfamily BER93_14180 SM00331 Sigma factor PP2C-like phosphatases BER93_14180 SM00332 Serine/threonine phosphatases, family 2C, catalytic domain BER93_14185 SM00479 BER93_14185 BER93_14200 SM00849 Metallo-beta-lactamase superfamily BER93_14205 SM00257 Lysin motif BER93_14215 SM00898 Formamidopyrimidine-DNA glycosylase N-terminal domain BER93_14215 SM01232 BER93_14215 BER93_14255 SM00481 DNA polymerase alpha chain like domain BER93_14295 SM00974 BER93_14295 BER93_14310 SM01092 CO dehydrogenase flavoprotein C-terminal domain BER93_14315 SM01008 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain BER93_14400 SM00382 ATPases associated with a variety of cellular activities BER93_14400 SM00994 ClpX C4-type zinc finger BER93_14400 SM01086 C-terminal, D2-small domain, of ClpB protein BER93_14405 SM00382 ATPases associated with a variety of cellular activities BER93_14405 SM00464 Found in ATP-dependent protease La (LON) BER93_14410 SM00411 bacterial (prokaryotic) histone like domain BER93_14495 SM00382 ATPases associated with a variety of cellular activities BER93_14505 SM00278 Helix-hairpin-helix DNA-binding motif class 1 BER93_14550 SM00382 ATPases associated with a variety of cellular activities BER93_14620 SM00283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). BER93_14620 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain BER93_14635 SM00421 helix_turn_helix, Lux Regulon BER93_14745 SM00387 Histidine kinase-like ATPases BER93_14745 SM00388 His Kinase A (phosphoacceptor) domain BER93_14745 SM00448 cheY-homologous receiver domain BER93_14750 SM00387 Histidine kinase-like ATPases BER93_14750 SM00388 His Kinase A (phosphoacceptor) domain BER93_14750 SM00448 cheY-homologous receiver domain BER93_14770 SM00448 cheY-homologous receiver domain BER93_14775 SM00387 Histidine kinase-like ATPases BER93_14775 SM00388 His Kinase A (phosphoacceptor) domain BER93_14805 SM00342 helix_turn_helix, arabinose operon control protein BER93_14810 SM00862 Transcriptional regulatory protein, C terminal BER93_14820 SM00382 ATPases associated with a variety of cellular activities BER93_14825 SM00228 Domain present in PSD-95, Dlg, and ZO-1/2. BER93_14870 SM00904 Riboflavin kinase BER93_14980 SM00244 prohibitin homologues BER93_15005 SM00478 endonuclease III BER93_15020 SM00421 helix_turn_helix, Lux Regulon BER93_15020 SM00448 cheY-homologous receiver domain BER93_15055 SM00387 Histidine kinase-like ATPases BER93_15055 SM00388 His Kinase A (phosphoacceptor) domain BER93_15060 SM00448 cheY-homologous receiver domain BER93_15060 SM00862 Transcriptional regulatory protein, C terminal BER93_15100 SM01060 BER93_15100 BER93_15110 SM00091 PAS domain BER93_15110 SM00342 helix_turn_helix, arabinose operon control protein BER93_15195 SM00382 ATPases associated with a variety of cellular activities BER93_15195 SM01086 C-terminal, D2-small domain, of ClpB protein BER93_15320 SM01329 BER93_15320 BER93_15345 SM00448 cheY-homologous receiver domain BER93_15345 SM00862 Transcriptional regulatory protein, C terminal BER93_15350 SM00387 Histidine kinase-like ATPases BER93_15350 SM00388 His Kinase A (phosphoacceptor) domain BER93_15370 SM00014 Acid phosphatase homologues BER93_15420 SM00369 Leucine-rich repeats, typical (most populated) subfamily BER93_15440 SM01149 BER93_15440 BER93_15465 SM00220 Serine/Threonine protein kinases, catalytic domain BER93_15500 SM01040 BRO family, N-terminal domain BER93_15515 SM00487 DEAD-like helicases superfamily BER93_15570 SM00528 Domain in histone-like proteins of HNS family BER93_15585 SM00382 ATPases associated with a variety of cellular activities BER93_15615 SM00882 Coenzyme A transferase BER93_15620 SM00882 Coenzyme A transferase BER93_15655 SM00893 Electron transfer flavoprotein domain BER93_15660 SM00893 Electron transfer flavoprotein domain BER93_15720 SM00382 ATPases associated with a variety of cellular activities BER93_15740 SM00116 Domain in cystathionine beta-synthase and other proteins. BER93_15780 SM00487 DEAD-like helicases superfamily BER93_15780 SM00490 helicase superfamily c-terminal domain BER93_15800 SM00065 Domain present in phytochromes and cGMP-specific phosphodiesterases. BER93_15845 SM00825 Beta-ketoacyl synthase BER93_15925 SM00830 Chorismate mutase type II BER93_15935 SM00382 ATPases associated with a variety of cellular activities BER93_16000 SM00986 Uracil DNA glycosylase superfamily BER93_16000 SM00987 UreE urease accessory protein, C-terminal domain BER93_16025 SM00382 ATPases associated with a variety of cellular activities BER93_16025 SM00930 BER93_16025 BER93_16100 SM00086 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) BER93_16100 SM00091 PAS domain BER93_16100 SM00387 Histidine kinase-like ATPases BER93_16100 SM00388 His Kinase A (phosphoacceptor) domain BER93_16100 SM00448 cheY-homologous receiver domain BER93_16120 SM01005 Alanine racemase, C-terminal domain BER93_16320 SM00878 Biotin carboxylase C-terminal domain BER93_16335 SM00530 Helix-turn-helix XRE-family like proteins BER93_16355 SM00798 AICARFT/IMPCHase bienzyme BER93_16355 SM00851 MGS-like domain BER93_16360 SM01209 BER93_16360 BER93_16360 SM01210 BER93_16360 BER93_16385 SM00563 Phosphate acyltransferases BER93_16575 SM00487 DEAD-like helicases superfamily BER93_16575 SM00490 helicase superfamily c-terminal domain BER93_16575 SM00847 Helicase associated domain (HA2) Add an annotation BER93_16610 SM00829 Enoylreductase BER93_16695 SM00878 Biotin carboxylase C-terminal domain BER93_16805 SM00065 Domain present in phytochromes and cGMP-specific phosphodiesterases. BER93_16805 SM00387 Histidine kinase-like ATPases BER93_16875 SM00387 Histidine kinase-like ATPases BER93_16910 SM01126 BER93_16910 BER93_16945 SM00846 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain BER93_16960 SM00849 Metallo-beta-lactamase superfamily BER93_16975 SM00382 ATPases associated with a variety of cellular activities BER93_17015 SM00861 Transketolase, pyrimidine binding domain BER93_17030 SM00028 Tetratricopeptide repeats BER93_17030 SM00327 von Willebrand factor (vWF) type A domain BER93_17035 SM00327 von Willebrand factor (vWF) type A domain BER93_17050 SM00382 ATPases associated with a variety of cellular activities BER93_17115 SM00554 Four repeated domains in the Fasciclin I family of proteins, present in many other contexts. BER93_17120 SM00986 Uracil DNA glycosylase superfamily BER93_17120 SM00987 UreE urease accessory protein, C-terminal domain BER93_17125 SM00729 Elongator protein 3, MiaB family, Radical SAM BER93_17190 SM00091 PAS domain BER93_17190 SM00138 Methyltransferase, chemotaxis proteins BER93_17190 SM00911 HWE histidine kinase BER93_17195 SM00448 cheY-homologous receiver domain BER93_17205 SM00382 ATPases associated with a variety of cellular activities BER93_17205 SM00448 cheY-homologous receiver domain BER93_17255 SM00382 ATPases associated with a variety of cellular activities BER93_17325 SM00382 ATPases associated with a variety of cellular activities BER93_17420 SM00304 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain BER93_17420 SM00331 Sigma factor PP2C-like phosphatases BER93_17445 SM00827 Acyl transferase domain in polyketide synthase (PKS) enzymes. BER93_17490 SM00867 YceI-like domain BER93_17565 SM00883 Chaperonin 10 Kd subunit BER93_17630 SM00642 Alpha-amylase domain BER93_17640 SM00642 Alpha-amylase domain BER93_17650 SM00642 Alpha-amylase domain BER93_17655 SM00642 Alpha-amylase domain BER93_17665 SM00267 diguanylate cyclase BER93_17710 SM00729 Elongator protein 3, MiaB family, Radical SAM BER93_17710 SM00876 Biotin and Thiamin Synthesis associated domain BER93_17770 SM01228 BER93_17770 BER93_17785 SM00090 RIO-like kinase BER93_17795 SM00420 helix_turn_helix, Deoxyribose operon repressor BER93_17795 SM01134 BER93_17795 BER93_17845 SM00563 Phosphate acyltransferases BER93_17955 SM00052 Putative diguanylate phosphodiesterase BER93_17955 SM00267 diguanylate cyclase BER93_17955 SM00448 cheY-homologous receiver domain BER93_17960 SM00387 Histidine kinase-like ATPases BER93_17960 SM00388 His Kinase A (phosphoacceptor) domain BER93_17960 SM00448 cheY-homologous receiver domain BER93_18015 SM00100 Cyclic nucleotide-monophosphate binding domain BER93_18015 SM00419 helix_turn_helix, cAMP Regulatory protein BER93_18090 SM01230 BER93_18090 BER93_18100 SM00046 Diacylglycerol kinase catalytic domain (presumed) BER93_18120 SM00271 DnaJ molecular chaperone homology domain BER93_18225 SM00644 BER93_18225 BER93_18235 SM00922 Mandelate racemase / muconate lactonizing enzyme, C-terminal domain BER93_18270 SM01217 BER93_18270 BER93_18275 SM00905 Dihydroneopterin aldolase BER93_18300 SM00400 zinc finger BER93_18300 SM00493 BER93_18300 BER93_18300 SM00766 DNA primase DnaG DnaB-binding BER93_18370 SM00363 S4 RNA-binding domain BER93_18420 SM00470 ParB-like nuclease domain BER93_18445 SM01259 BER93_18445 BER93_18475 SM00836 DALR anticodon binding domain BER93_18475 SM01016 Arginyl tRNA synthetase N terminal dom BER93_18520 SM00823 Phosphopantetheine attachment site BER93_18520 SM00824 Thioesterase BER93_18530 SM00387 Histidine kinase-like ATPases BER93_18530 SM00388 His Kinase A (phosphoacceptor) domain BER93_18535 SM00448 cheY-homologous receiver domain BER93_18535 SM00862 Transcriptional regulatory protein, C terminal BER93_18560 SM00248 ankyrin repeats BER93_18565 SM01060 BER93_18565 BER93_18570 SM00491 BER93_18570 BER93_18595 SM01004 Delta-aminolevulinic acid dehydratase BER93_18640 SM01230 BER93_18640 BER93_18645 SM00938 Nitrogen regulatory protein P-II BER93_18655 SM00387 Histidine kinase-like ATPases BER93_18655 SM00388 His Kinase A (phosphoacceptor) domain BER93_18660 SM00382 ATPases associated with a variety of cellular activities BER93_18660 SM00448 cheY-homologous receiver domain BER93_18685 SM00028 Tetratricopeptide repeats BER93_18700 SM00563 Phosphate acyltransferases BER93_18710 SM00155 Phospholipase D. Active site motifs. BER93_18715 SM00867 YceI-like domain BER93_18720 SM00855 Phosphoglycerate mutase family BER93_18775 SM00382 ATPases associated with a variety of cellular activities BER93_18785 SM00382 ATPases associated with a variety of cellular activities BER93_18790 SM00344 helix_turn_helix ASNC type BER93_18815 SM00354 helix_turn _helix lactose operon repressor BER93_18855 SM00642 Alpha-amylase domain BER93_18860 SM00642 Alpha-amylase domain BER93_18865 SM00642 Alpha-amylase domain BER93_18950 SM00829 Enoylreductase BER93_18975 SM00836 DALR anticodon binding domain BER93_18985 SM00382 ATPases associated with a variety of cellular activities BER93_19050 SM00354 helix_turn _helix lactose operon repressor BER93_19230 SM00530 Helix-turn-helix XRE-family like proteins BER93_19255 SM00382 ATPases associated with a variety of cellular activities BER93_19320 SM00065 Domain present in phytochromes and cGMP-specific phosphodiesterases. BER93_19320 SM00091 PAS domain BER93_19320 SM00267 diguanylate cyclase BER93_19400 SM00470 ParB-like nuclease domain BER93_19510 SM00857 Resolvase, N terminal domain BER93_19585 SM00857 Resolvase, N terminal domain BER93_19650 SM00857 Resolvase, N terminal domain BER93_19680 SM00966 SpoVT / AbrB like domain BER93_19700 SM00857 Resolvase, N terminal domain