-- dump date 20120504_151834 -- class Genbank::misc_feature -- table misc_feature_note -- id note 394221000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 394221000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 394221000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221000004 Walker A motif; other site 394221000005 ATP binding site [chemical binding]; other site 394221000006 Walker B motif; other site 394221000007 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 394221000008 DnaA box-binding interface [nucleotide binding]; other site 394221000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 394221000010 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 394221000011 putative DNA binding surface [nucleotide binding]; other site 394221000012 dimer interface [polypeptide binding]; other site 394221000013 beta-clamp/clamp loader binding surface; other site 394221000014 beta-clamp/translesion DNA polymerase binding surface; other site 394221000015 recombination protein F; Reviewed; Region: recF; PRK00064 394221000016 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221000017 Walker A/P-loop; other site 394221000018 ATP binding site [chemical binding]; other site 394221000019 Q-loop/lid; other site 394221000020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221000021 ABC transporter signature motif; other site 394221000022 Walker B; other site 394221000023 D-loop; other site 394221000024 H-loop/switch region; other site 394221000025 CAAX protease self-immunity; Region: Abi; cl00558 394221000026 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394221000027 Helix-turn-helix domains; Region: HTH; cl00088 394221000028 Uncharacterized conserved protein [Function unknown]; Region: COG2308 394221000029 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 394221000030 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 394221000031 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 394221000032 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 394221000033 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 394221000034 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 394221000035 LysE type translocator; Region: LysE; cl00565 394221000036 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 394221000037 Ligand binding site; other site 394221000038 Putative Catalytic site; other site 394221000039 DXD motif; other site 394221000040 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 394221000041 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 394221000042 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 394221000043 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 394221000044 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 394221000045 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 394221000046 anchoring element; other site 394221000047 dimer interface [polypeptide binding]; other site 394221000048 ATP binding site [chemical binding]; other site 394221000049 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 394221000050 active site 394221000051 putative metal-binding site [ion binding]; other site 394221000052 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 394221000053 DNA polymerase I; Provisional; Region: PRK05755 394221000054 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 394221000055 active site 394221000056 metal binding site 1 [ion binding]; metal-binding site 394221000057 putative 5' ssDNA interaction site; other site 394221000058 metal binding site 3; metal-binding site 394221000059 metal binding site 2 [ion binding]; metal-binding site 394221000060 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 394221000061 putative DNA binding site [nucleotide binding]; other site 394221000062 putative metal binding site [ion binding]; other site 394221000063 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 394221000064 active site 394221000065 catalytic site [active] 394221000066 substrate binding site [chemical binding]; other site 394221000067 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 394221000068 active site 394221000069 DNA binding site [nucleotide binding] 394221000070 catalytic site [active] 394221000071 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 394221000072 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221000073 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 394221000074 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 394221000075 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 394221000076 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 394221000077 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 394221000078 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394221000079 N-terminal plug; other site 394221000080 ligand-binding site [chemical binding]; other site 394221000081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000082 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 394221000083 NAD(P) binding site [chemical binding]; other site 394221000084 active site 394221000085 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 394221000086 catalytic nucleophile [active] 394221000087 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 394221000088 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 394221000089 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 394221000090 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394221000091 FeS/SAM binding site; other site 394221000092 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 394221000093 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394221000094 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221000095 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394221000096 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394221000097 dimer interface [polypeptide binding]; other site 394221000098 putative CheW interface [polypeptide binding]; other site 394221000099 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221000100 S-adenosylmethionine binding site [chemical binding]; other site 394221000101 Creatinine amidohydrolase; Region: Creatininase; cl00618 394221000102 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 394221000103 iron-sulfur cluster [ion binding]; other site 394221000104 [2Fe-2S] cluster binding site [ion binding]; other site 394221000105 YCII-related domain; Region: YCII; cl00999 394221000106 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 394221000107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000108 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 394221000109 UGMP family protein; Validated; Region: PRK09604 394221000110 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 394221000111 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 394221000112 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 394221000113 domain interfaces; other site 394221000114 active site 394221000115 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 394221000116 active site 394221000117 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 394221000118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 394221000119 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 394221000120 HemY protein N-terminus; Region: HemY_N; pfam07219 394221000121 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 394221000122 AAA domain; Region: AAA_18; pfam13238 394221000123 ATP-binding site [chemical binding]; other site 394221000124 Sugar specificity; other site 394221000125 Pyrimidine base specificity; other site 394221000126 putative S-transferase; Provisional; Region: PRK11752 394221000127 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 394221000128 C-terminal domain interface [polypeptide binding]; other site 394221000129 GSH binding site (G-site) [chemical binding]; other site 394221000130 dimer interface [polypeptide binding]; other site 394221000131 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 394221000132 dimer interface [polypeptide binding]; other site 394221000133 N-terminal domain interface [polypeptide binding]; other site 394221000134 active site 394221000135 Domain of unknown function (DUF305); Region: DUF305; cl15795 394221000136 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 394221000137 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 394221000138 heme binding site [chemical binding]; other site 394221000139 ferroxidase pore; other site 394221000140 ferroxidase diiron center [ion binding]; other site 394221000141 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 394221000142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 394221000143 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 394221000144 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 394221000145 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 394221000146 homodimer interface [polypeptide binding]; other site 394221000147 NADP binding site [chemical binding]; other site 394221000148 substrate binding site [chemical binding]; other site 394221000149 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 394221000150 YGGT family; Region: YGGT; cl00508 394221000151 Response regulator receiver domain; Region: Response_reg; pfam00072 394221000152 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 394221000153 active site 394221000154 phosphorylation site [posttranslational modification] 394221000155 intermolecular recognition site; other site 394221000156 dimerization interface [polypeptide binding]; other site 394221000157 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221000158 non-specific DNA binding site [nucleotide binding]; other site 394221000159 salt bridge; other site 394221000160 sequence-specific DNA binding site [nucleotide binding]; other site 394221000161 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 394221000162 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 394221000163 aromatic arch; other site 394221000164 DCoH dimer interaction site [polypeptide binding]; other site 394221000165 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 394221000166 DCoH tetramer interaction site [polypeptide binding]; other site 394221000167 substrate binding site [chemical binding]; other site 394221000168 biotin synthase; Region: bioB; TIGR00433 394221000169 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394221000170 FeS/SAM binding site; other site 394221000171 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 394221000172 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 394221000173 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 394221000174 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 394221000175 active site triad [active] 394221000176 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 394221000177 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221000178 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 394221000179 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221000180 dimerization interface [polypeptide binding]; other site 394221000181 putative DNA binding site [nucleotide binding]; other site 394221000182 putative Zn2+ binding site [ion binding]; other site 394221000183 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221000184 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 394221000185 Walker A/P-loop; other site 394221000186 ATP binding site [chemical binding]; other site 394221000187 Q-loop/lid; other site 394221000188 ABC transporter signature motif; other site 394221000189 Walker B; other site 394221000190 D-loop; other site 394221000191 H-loop/switch region; other site 394221000192 Zinc-finger domain; Region: zf-CHCC; cl01821 394221000193 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221000194 transmembrane helices; other site 394221000195 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221000196 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 394221000197 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 394221000198 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 394221000199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221000200 active site 394221000201 phosphorylation site [posttranslational modification] 394221000202 intermolecular recognition site; other site 394221000203 dimerization interface [polypeptide binding]; other site 394221000204 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394221000205 DNA binding site [nucleotide binding] 394221000206 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 394221000207 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 394221000208 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221000209 dimer interface [polypeptide binding]; other site 394221000210 phosphorylation site [posttranslational modification] 394221000211 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221000212 ATP binding site [chemical binding]; other site 394221000213 Mg2+ binding site [ion binding]; other site 394221000214 G-X-G motif; other site 394221000215 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 394221000216 active pocket/dimerization site; other site 394221000217 active site 394221000218 phosphorylation site [posttranslational modification] 394221000219 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 394221000220 dimerization domain swap beta strand [polypeptide binding]; other site 394221000221 regulatory protein interface [polypeptide binding]; other site 394221000222 active site 394221000223 regulatory phosphorylation site [posttranslational modification]; other site 394221000224 Gram-negative bacterial tonB protein; Region: TonB; cl10048 394221000225 PAS fold; Region: PAS_7; pfam12860 394221000226 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 394221000227 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 394221000228 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221000229 ATP binding site [chemical binding]; other site 394221000230 Mg2+ binding site [ion binding]; other site 394221000231 G-X-G motif; other site 394221000232 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 394221000233 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 394221000234 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 394221000235 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 394221000236 Substrate binding site; other site 394221000237 metal-binding site 394221000238 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 394221000239 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 394221000240 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 394221000241 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 394221000242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221000243 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 394221000244 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 394221000245 catalytic residues [active] 394221000246 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 394221000247 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 394221000248 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 394221000249 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 394221000250 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 394221000251 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 394221000252 substrate binding site [chemical binding]; other site 394221000253 active site 394221000254 catalytic residues [active] 394221000255 heterodimer interface [polypeptide binding]; other site 394221000256 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 394221000257 Protein of unknown function (DUF497); Region: DUF497; cl01108 394221000258 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 394221000259 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 394221000260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221000261 catalytic residue [active] 394221000262 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 394221000263 active site 394221000264 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394221000265 Helix-turn-helix domains; Region: HTH; cl00088 394221000266 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 394221000267 dimerization interface [polypeptide binding]; other site 394221000268 substrate binding pocket [chemical binding]; other site 394221000269 SprA-related family; Region: SprA-related; pfam12118 394221000270 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 394221000271 IHF dimer interface [polypeptide binding]; other site 394221000272 IHF - DNA interface [nucleotide binding]; other site 394221000273 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 394221000274 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 394221000275 RNA binding site [nucleotide binding]; other site 394221000276 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 394221000277 RNA binding site [nucleotide binding]; other site 394221000278 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 394221000279 RNA binding site [nucleotide binding]; other site 394221000280 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 394221000281 RNA binding site [nucleotide binding]; other site 394221000282 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 394221000283 RNA binding site [nucleotide binding]; other site 394221000284 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 394221000285 RNA binding site [nucleotide binding]; other site 394221000286 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 394221000287 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 394221000288 CMP-binding site; other site 394221000289 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 394221000290 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 394221000291 hinge; other site 394221000292 active site 394221000293 TIGR02300 family protein; Region: FYDLN_acid 394221000294 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394221000295 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 394221000296 active site 394221000297 phosphorylation site [posttranslational modification] 394221000298 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 394221000299 30S subunit binding site; other site 394221000300 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 394221000301 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 394221000302 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 394221000303 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 394221000304 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 394221000305 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 394221000306 Walker A/P-loop; other site 394221000307 ATP binding site [chemical binding]; other site 394221000308 Q-loop/lid; other site 394221000309 ABC transporter signature motif; other site 394221000310 Walker B; other site 394221000311 D-loop; other site 394221000312 H-loop/switch region; other site 394221000313 OstA-like protein; Region: OstA; cl00844 394221000314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 394221000315 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 394221000316 putative active site [active] 394221000317 catalytic site [active] 394221000318 putative substrate binding site [chemical binding]; other site 394221000319 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 394221000320 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 394221000321 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 394221000322 putative NAD(P) binding site [chemical binding]; other site 394221000323 active site 394221000324 CAAX protease self-immunity; Region: Abi; cl00558 394221000325 Bacitracin resistance protein BacA; Region: BacA; cl00858 394221000326 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 394221000327 Cation efflux family; Region: Cation_efflux; cl00316 394221000328 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394221000329 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394221000330 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 394221000331 N-terminal domain interface [polypeptide binding]; other site 394221000332 dimer interface [polypeptide binding]; other site 394221000333 substrate binding pocket (H-site) [chemical binding]; other site 394221000334 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 394221000335 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 394221000336 Response regulator receiver domain; Region: Response_reg; pfam00072 394221000337 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221000338 active site 394221000339 phosphorylation site [posttranslational modification] 394221000340 intermolecular recognition site; other site 394221000341 dimerization interface [polypeptide binding]; other site 394221000342 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394221000343 metal binding site [ion binding]; metal-binding site 394221000344 active site 394221000345 I-site; other site 394221000346 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 394221000347 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394221000348 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 394221000349 putative ADP-binding pocket [chemical binding]; other site 394221000350 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 394221000351 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 394221000352 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 394221000353 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 394221000354 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 394221000355 H+ Antiporter protein; Region: 2A0121; TIGR00900 394221000356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221000357 putative substrate translocation pore; other site 394221000358 MerC mercury resistance protein; Region: MerC; cl03934 394221000359 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 394221000360 ribosomal protein L20; Region: rpl20; CHL00068 394221000361 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 394221000362 23S rRNA binding site [nucleotide binding]; other site 394221000363 L21 binding site [polypeptide binding]; other site 394221000364 L13 binding site [polypeptide binding]; other site 394221000365 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 394221000366 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 394221000367 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 394221000368 dimer interface [polypeptide binding]; other site 394221000369 motif 1; other site 394221000370 active site 394221000371 motif 2; other site 394221000372 motif 3; other site 394221000373 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 394221000374 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 394221000375 putative tRNA-binding site [nucleotide binding]; other site 394221000376 B3/4 domain; Region: B3_4; cl11458 394221000377 tRNA synthetase B5 domain; Region: B5; cl08394 394221000378 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 394221000379 dimer interface [polypeptide binding]; other site 394221000380 motif 1; other site 394221000381 motif 3; other site 394221000382 motif 2; other site 394221000383 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 394221000384 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 394221000385 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 394221000386 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394221000387 Sel1 repeat; Region: Sel1; cl02723 394221000388 Cation efflux family; Region: Cation_efflux; cl00316 394221000389 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 394221000390 DNA binding residues [nucleotide binding] 394221000391 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 394221000392 dimer interface [polypeptide binding]; other site 394221000393 putative metal binding site [ion binding]; other site 394221000394 Predicted acetyltransferase [General function prediction only]; Region: COG3153 394221000395 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394221000396 Coenzyme A binding pocket [chemical binding]; other site 394221000397 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 394221000398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000399 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 394221000400 Peptidase family C69; Region: Peptidase_C69; pfam03577 394221000401 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 394221000402 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 394221000403 active site 394221000404 Zn binding site [ion binding]; other site 394221000405 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 394221000406 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 394221000407 DNA binding residues [nucleotide binding] 394221000408 dimer interface [polypeptide binding]; other site 394221000409 [2Fe-2S] cluster binding site [ion binding]; other site 394221000410 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221000411 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 394221000412 active site 394221000413 metal binding site [ion binding]; metal-binding site 394221000414 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 394221000415 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 394221000416 [2Fe-2S] cluster binding site [ion binding]; other site 394221000417 C-terminal catalytic domain of plant choline monooxygenase (CMO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_CMO-like; cd08883 394221000418 putative alpha subunit interface [polypeptide binding]; other site 394221000419 putative active site [active] 394221000420 putative substrate binding site [chemical binding]; other site 394221000421 Fe binding site [ion binding]; other site 394221000422 arginine:agmatin antiporter; Provisional; Region: PRK10644 394221000423 GTP-binding protein LepA; Provisional; Region: PRK05433 394221000424 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 394221000425 G1 box; other site 394221000426 putative GEF interaction site [polypeptide binding]; other site 394221000427 GTP/Mg2+ binding site [chemical binding]; other site 394221000428 Switch I region; other site 394221000429 G2 box; other site 394221000430 G3 box; other site 394221000431 Switch II region; other site 394221000432 G4 box; other site 394221000433 G5 box; other site 394221000434 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 394221000435 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 394221000436 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 394221000437 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394221000438 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 394221000439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000440 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 394221000441 L-serine binding site [chemical binding]; other site 394221000442 ACT domain interface; other site 394221000443 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 394221000444 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 394221000445 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 394221000446 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394221000447 motif II; other site 394221000448 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 394221000449 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 394221000450 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394221000451 DNA binding site [nucleotide binding] 394221000452 Int/Topo IB signature motif; other site 394221000453 active site 394221000454 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221000455 non-specific DNA binding site [nucleotide binding]; other site 394221000456 salt bridge; other site 394221000457 sequence-specific DNA binding site [nucleotide binding]; other site 394221000458 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 394221000459 WYL domain; Region: WYL; cl14852 394221000460 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 394221000461 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 394221000462 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 394221000463 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394221000464 ATP binding site [chemical binding]; other site 394221000465 putative Mg++ binding site [ion binding]; other site 394221000466 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221000467 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 394221000468 HsdM N-terminal domain; Region: HsdM_N; pfam12161 394221000469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000470 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 394221000471 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 394221000472 Protein of unknown function DUF91; Region: DUF91; cl00709 394221000473 Uncharacterized conserved protein [Function unknown]; Region: COG3586 394221000474 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221000475 AAA domain; Region: AAA_23; pfam13476 394221000476 Walker A/P-loop; other site 394221000477 ATP binding site [chemical binding]; other site 394221000478 Uncharacterized conserved protein [Function unknown]; Region: COG4938 394221000479 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 394221000480 polynucleotide kinase-phosphatase; Region: bacter_Pnkp; TIGR04075 394221000481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221000482 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 394221000483 active site 394221000484 metal binding site [ion binding]; metal-binding site 394221000485 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 394221000486 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 394221000487 RNA repair, ligase-Pnkp-associating, region of Hen1; Region: Hen1_L; pfam12623 394221000488 3' terminal RNA ribose 2'-O-methyltransferase Hen1; Region: bacter_Hen1; TIGR04074 394221000489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000490 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 394221000491 catalytic residues [active] 394221000492 catalytic nucleophile [active] 394221000493 Recombinase; Region: Recombinase; pfam07508 394221000494 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 394221000495 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 394221000496 DDE domain; Region: DDE_Tnp_IS240; pfam13610 394221000497 Integrase core domain; Region: rve; cl01316 394221000498 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 394221000499 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 394221000500 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221000501 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 394221000502 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 394221000503 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 394221000504 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 394221000505 DNA binding residues [nucleotide binding] 394221000506 dimer interface [polypeptide binding]; other site 394221000507 copper binding site [ion binding]; other site 394221000508 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 394221000509 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 394221000510 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 394221000511 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 394221000512 Amino acid permease; Region: AA_permease_2; pfam13520 394221000513 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 394221000514 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 394221000515 Cytochrome c; Region: Cytochrom_C; cl11414 394221000516 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 394221000517 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 394221000518 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 394221000519 [2Fe-2S] cluster binding site [ion binding]; other site 394221000520 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 394221000521 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 394221000522 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 394221000523 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 394221000524 Nitrogen regulatory protein P-II; Region: P-II; cl00412 394221000525 Nitrogen regulatory protein P-II; Region: P-II; smart00938 394221000526 Acetokinase family; Region: Acetate_kinase; cl01029 394221000527 propionate/acetate kinase; Provisional; Region: PRK12379 394221000528 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 394221000529 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 394221000530 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394221000531 active site 394221000532 thymidine phosphorylase; Provisional; Region: PRK04350 394221000533 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 394221000534 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 394221000535 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 394221000536 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 394221000537 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 394221000538 Beta-Casp domain; Region: Beta-Casp; cl12567 394221000539 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 394221000540 FtsH Extracellular; Region: FtsH_ext; pfam06480 394221000541 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 394221000542 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221000543 Walker A motif; other site 394221000544 ATP binding site [chemical binding]; other site 394221000545 Walker B motif; other site 394221000546 arginine finger; other site 394221000547 Peptidase family M41; Region: Peptidase_M41; pfam01434 394221000548 Phospholipid methyltransferase; Region: PEMT; cl00763 394221000549 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 394221000550 active site 394221000551 cosubstrate binding site; other site 394221000552 catalytic site [active] 394221000553 OpgC protein; Region: OpgC_C; cl00792 394221000554 Acyltransferase family; Region: Acyl_transf_3; pfam01757 394221000555 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 394221000556 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 394221000557 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 394221000558 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394221000559 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394221000560 DNA binding residues [nucleotide binding] 394221000561 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 394221000562 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 394221000563 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 394221000564 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 394221000565 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 394221000566 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 394221000567 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 394221000568 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221000569 dimerization interface [polypeptide binding]; other site 394221000570 putative DNA binding site [nucleotide binding]; other site 394221000571 putative Zn2+ binding site [ion binding]; other site 394221000572 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221000573 non-specific DNA binding site [nucleotide binding]; other site 394221000574 salt bridge; other site 394221000575 sequence-specific DNA binding site [nucleotide binding]; other site 394221000576 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 394221000577 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 394221000578 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family; Region: 2A067; TIGR00921 394221000579 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 394221000580 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 394221000581 Helix-turn-helix domain; Region: HTH_18; pfam12833 394221000582 OpgC protein; Region: OpgC_C; cl00792 394221000583 Protein of unknown function, DUF; Region: DUF411; cl01142 394221000584 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 394221000585 DDE domain; Region: DDE_Tnp_IS240; pfam13610 394221000586 Integrase core domain; Region: rve; cl01316 394221000587 OpgC protein; Region: OpgC_C; cl00792 394221000588 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 394221000589 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 394221000590 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 394221000591 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 394221000592 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 394221000593 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221000594 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221000595 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 394221000596 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221000597 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 394221000598 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221000599 substrate binding pocket [chemical binding]; other site 394221000600 catalytic triad [active] 394221000601 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394221000602 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 394221000603 substrate binding site [chemical binding]; other site 394221000604 ATP binding site [chemical binding]; other site 394221000605 SAF domain; Region: SAF; cl00555 394221000606 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 394221000607 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 394221000608 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394221000609 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394221000610 DNA binding site [nucleotide binding] 394221000611 domain linker motif; other site 394221000612 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 394221000613 putative dimerization interface [polypeptide binding]; other site 394221000614 putative ligand binding site [chemical binding]; other site 394221000615 Glucuronate isomerase; Region: UxaC; cl00829 394221000616 hypothetical protein; Provisional; Region: PRK09273 394221000617 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 394221000618 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 394221000619 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 394221000620 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 394221000621 NADP binding site [chemical binding]; other site 394221000622 homodimer interface [polypeptide binding]; other site 394221000623 active site 394221000624 DctM-like transporters; Region: DctM; pfam06808 394221000625 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 394221000626 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 394221000627 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 394221000628 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 394221000629 Pectate lyase; Region: Pec_lyase_C; cl01593 394221000630 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 394221000631 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 394221000632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000633 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221000634 putative Zn2+ binding site [ion binding]; other site 394221000635 putative DNA binding site [nucleotide binding]; other site 394221000636 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 394221000637 active site residue [active] 394221000638 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394221000639 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221000640 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221000641 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394221000642 Protein export membrane protein; Region: SecD_SecF; cl14618 394221000643 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 394221000644 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394221000645 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394221000646 DNA binding site [nucleotide binding] 394221000647 domain linker motif; other site 394221000648 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 394221000649 putative ligand binding site [chemical binding]; other site 394221000650 putative dimerization interface [polypeptide binding]; other site 394221000651 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221000652 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221000653 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 394221000654 active site 394221000655 catalytic residues [active] 394221000656 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 394221000657 MFS/sugar transport protein; Region: MFS_2; pfam13347 394221000658 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 394221000659 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 394221000660 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 394221000661 Fibronectin type III-like domain; Region: Fn3-like; cl15273 394221000662 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 394221000663 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 394221000664 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 394221000665 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 394221000666 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 394221000667 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 394221000668 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221000669 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221000670 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394221000671 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394221000672 DNA-binding site [nucleotide binding]; DNA binding site 394221000673 FCD domain; Region: FCD; cl11656 394221000674 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 394221000675 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 394221000676 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 394221000677 Cupin domain; Region: Cupin_2; cl09118 394221000678 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221000679 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394221000680 putative substrate translocation pore; other site 394221000681 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221000682 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 394221000683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000684 NAD(P) binding site [chemical binding]; other site 394221000685 active site 394221000686 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 394221000687 substrate binding site [chemical binding]; other site 394221000688 ATP binding site [chemical binding]; other site 394221000689 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 394221000690 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 394221000691 short chain dehydrogenase; Provisional; Region: PRK12828 394221000692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000693 NAD(P) binding site [chemical binding]; other site 394221000694 active site 394221000695 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 394221000696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000697 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394221000698 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221000699 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221000700 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394221000701 Protein export membrane protein; Region: SecD_SecF; cl14618 394221000702 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394221000703 enoyl-CoA hydratase; Provisional; Region: PRK06127 394221000704 substrate binding site [chemical binding]; other site 394221000705 oxyanion hole (OAH) forming residues; other site 394221000706 trimer interface [polypeptide binding]; other site 394221000707 MFS/sugar transport protein; Region: MFS_2; pfam13347 394221000708 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 394221000709 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394221000710 metal binding site [ion binding]; metal-binding site 394221000711 active site 394221000712 I-site; other site 394221000713 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394221000714 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 394221000715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000716 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221000717 S-adenosylmethionine binding site [chemical binding]; other site 394221000718 Uncharacterized conserved protein [Function unknown]; Region: COG3496 394221000719 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 394221000720 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 394221000721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000723 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 394221000724 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394221000725 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394221000726 DNA binding residues [nucleotide binding] 394221000727 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 394221000728 Cupin domain; Region: Cupin_2; cl09118 394221000729 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394221000730 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394221000731 DNA binding site [nucleotide binding] 394221000732 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 394221000733 putative dimerization interface [polypeptide binding]; other site 394221000734 putative ligand binding site [chemical binding]; other site 394221000735 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 394221000736 anti sigma factor interaction site; other site 394221000737 regulatory phosphorylation site [posttranslational modification]; other site 394221000738 Response regulator receiver domain; Region: Response_reg; pfam00072 394221000739 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221000740 active site 394221000741 phosphorylation site [posttranslational modification] 394221000742 intermolecular recognition site; other site 394221000743 dimerization interface [polypeptide binding]; other site 394221000744 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 394221000745 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 394221000746 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 394221000747 active site 394221000748 dimer interface [polypeptide binding]; other site 394221000749 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 394221000750 tartrate dehydrogenase; Provisional; Region: PRK08194 394221000751 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 394221000752 substrate binding site [chemical binding]; other site 394221000753 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 394221000754 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 394221000755 substrate binding site [chemical binding]; other site 394221000756 ligand binding site [chemical binding]; other site 394221000757 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 394221000758 homodimer interface [polypeptide binding]; other site 394221000759 substrate-cofactor binding pocket; other site 394221000760 catalytic residue [active] 394221000761 2-isopropylmalate synthase; Validated; Region: PRK00915 394221000762 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 394221000763 active site 394221000764 catalytic residues [active] 394221000765 metal binding site [ion binding]; metal-binding site 394221000766 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 394221000767 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 394221000768 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 394221000769 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394221000770 PYR/PP interface [polypeptide binding]; other site 394221000771 dimer interface [polypeptide binding]; other site 394221000772 TPP binding site [chemical binding]; other site 394221000773 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 394221000774 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 394221000775 TPP-binding site [chemical binding]; other site 394221000776 dimer interface [polypeptide binding]; other site 394221000777 ketol-acid reductoisomerase; Provisional; Region: PRK05479 394221000778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000779 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 394221000780 Dehydratase family; Region: ILVD_EDD; cl00340 394221000781 Protein of unknown function (DUF454); Region: DUF454; cl01063 394221000782 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 394221000783 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 394221000784 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 394221000785 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 394221000786 active site 394221000787 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 394221000788 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 394221000789 inhibitor site; inhibition site 394221000790 active site 394221000791 dimer interface [polypeptide binding]; other site 394221000792 catalytic residue [active] 394221000793 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 394221000794 Proline racemase; Region: Pro_racemase; pfam05544 394221000795 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394221000796 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394221000797 DNA-binding site [nucleotide binding]; DNA binding site 394221000798 FCD domain; Region: FCD; cl11656 394221000799 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 394221000800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000801 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 394221000802 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 394221000803 active site 394221000804 dimer interface [polypeptide binding]; other site 394221000805 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 394221000806 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 394221000807 active site 394221000808 FMN binding site [chemical binding]; other site 394221000809 substrate binding site [chemical binding]; other site 394221000810 3Fe-4S cluster binding site [ion binding]; other site 394221000811 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 394221000812 domain interface; other site 394221000813 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 394221000814 dimer interface [polypeptide binding]; other site 394221000815 substrate binding site [chemical binding]; other site 394221000816 metal binding sites [ion binding]; metal-binding site 394221000817 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 394221000818 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394221000819 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221000820 catalytic residue [active] 394221000821 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 394221000822 Class III ribonucleotide reductase; Region: RNR_III; cd01675 394221000823 effector binding site; other site 394221000824 active site 394221000825 Zn binding site [ion binding]; other site 394221000826 glycine loop; other site 394221000827 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 394221000828 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394221000829 FeS/SAM binding site; other site 394221000830 NnrS protein; Region: NnrS; cl01258 394221000831 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 394221000832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000833 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 394221000834 dimer interaction site [polypeptide binding]; other site 394221000835 substrate-binding tunnel; other site 394221000836 active site 394221000837 catalytic site [active] 394221000838 substrate binding site [chemical binding]; other site 394221000839 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 394221000840 dimer interaction site [polypeptide binding]; other site 394221000841 substrate-binding tunnel; other site 394221000842 active site 394221000843 catalytic site [active] 394221000844 substrate binding site [chemical binding]; other site 394221000845 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 394221000846 AMP-binding enzyme; Region: AMP-binding; cl15778 394221000847 enoyl-CoA hydratase; Provisional; Region: PRK06688 394221000848 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394221000849 substrate binding site [chemical binding]; other site 394221000850 oxyanion hole (OAH) forming residues; other site 394221000851 trimer interface [polypeptide binding]; other site 394221000852 Helix-turn-helix domains; Region: HTH; cl00088 394221000853 WHG domain; Region: WHG; pfam13305 394221000854 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221000855 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394221000856 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 394221000857 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394221000858 N-terminal plug; other site 394221000859 ligand-binding site [chemical binding]; other site 394221000860 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394221000861 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221000862 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 394221000863 Helix-turn-helix domains; Region: HTH; cl00088 394221000864 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 394221000865 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 394221000866 Sodium:solute symporter family; Region: SSF; cl00456 394221000867 Phospholipid methyltransferase; Region: PEMT; cl00763 394221000868 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 394221000869 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221000870 TolB amino-terminal domain; Region: TolB_N; cl00639 394221000871 TolB amino-terminal domain; Region: TolB_N; cl00639 394221000872 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 394221000873 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221000874 binding surface 394221000875 TPR motif; other site 394221000876 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 394221000877 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394221000878 DNA binding residues [nucleotide binding] 394221000879 dimerization interface [polypeptide binding]; other site 394221000880 TolB amino-terminal domain; Region: TolB_N; cl00639 394221000881 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 394221000882 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221000883 Zn binding site [ion binding]; other site 394221000884 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 394221000885 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 394221000886 dimer interface [polypeptide binding]; other site 394221000887 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 394221000888 active site 394221000889 Fe binding site [ion binding]; other site 394221000890 Helix-turn-helix domains; Region: HTH; cl00088 394221000891 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 394221000892 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 394221000893 G1 box; other site 394221000894 putative GEF interaction site [polypeptide binding]; other site 394221000895 GTP/Mg2+ binding site [chemical binding]; other site 394221000896 Switch I region; other site 394221000897 G2 box; other site 394221000898 G3 box; other site 394221000899 Switch II region; other site 394221000900 G4 box; other site 394221000901 G5 box; other site 394221000902 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 394221000903 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 394221000904 Predicted helicase [General function prediction only]; Region: COG4889 394221000905 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 394221000906 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 394221000907 FAD binding pocket [chemical binding]; other site 394221000908 FAD binding motif [chemical binding]; other site 394221000909 phosphate binding motif [ion binding]; other site 394221000910 beta-alpha-beta structure motif; other site 394221000911 NAD binding pocket [chemical binding]; other site 394221000912 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 394221000913 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 394221000914 dimer interface [polypeptide binding]; other site 394221000915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221000916 catalytic residue [active] 394221000917 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 394221000918 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 394221000919 Active Sites [active] 394221000920 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 394221000921 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 394221000922 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 394221000923 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 394221000924 siroheme synthase; Provisional; Region: cysG; PRK10637 394221000925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000926 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 394221000927 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 394221000928 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394221000929 Helix-turn-helix domains; Region: HTH; cl00088 394221000930 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 394221000931 dimerization interface [polypeptide binding]; other site 394221000932 substrate binding pocket [chemical binding]; other site 394221000933 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 394221000934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000935 putative bifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta; Provisional; Region: PRK12778 394221000936 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 394221000937 4Fe-4S binding domain; Region: Fer4; cl02805 394221000938 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 394221000939 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 394221000940 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 394221000941 dimer interface [polypeptide binding]; other site 394221000942 PYR/PP interface [polypeptide binding]; other site 394221000943 TPP binding site [chemical binding]; other site 394221000944 substrate binding site [chemical binding]; other site 394221000945 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 394221000946 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 394221000947 TPP-binding site [chemical binding]; other site 394221000948 Predicted transcriptional regulator [Transcription]; Region: COG1395 394221000949 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221000950 non-specific DNA binding site [nucleotide binding]; other site 394221000951 salt bridge; other site 394221000952 sequence-specific DNA binding site [nucleotide binding]; other site 394221000953 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221000954 non-specific DNA binding site [nucleotide binding]; other site 394221000955 salt bridge; other site 394221000956 sequence-specific DNA binding site [nucleotide binding]; other site 394221000957 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]; Region: COG3620 394221000958 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221000959 non-specific DNA binding site [nucleotide binding]; other site 394221000960 salt bridge; other site 394221000961 sequence-specific DNA binding site [nucleotide binding]; other site 394221000962 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221000963 non-specific DNA binding site [nucleotide binding]; other site 394221000964 salt bridge; other site 394221000965 sequence-specific DNA binding site [nucleotide binding]; other site 394221000966 PAS domain; Region: PAS_9; pfam13426 394221000967 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 394221000968 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 394221000969 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 394221000970 PA/protease or protease-like domain interface [polypeptide binding]; other site 394221000971 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 394221000972 metal binding site [ion binding]; metal-binding site 394221000973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221000974 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394221000975 putative substrate translocation pore; other site 394221000976 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 394221000977 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394221000978 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 394221000979 catalytic core [active] 394221000980 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 394221000981 Ligand binding site; other site 394221000982 oligomer interface; other site 394221000983 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 394221000984 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 394221000985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000986 acetylglutamate kinase; Provisional; Region: PRK04531 394221000987 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 394221000988 nucleotide binding site [chemical binding]; other site 394221000989 substrate binding site [chemical binding]; other site 394221000990 DUF619 domain of various N-acetylglutamate Synthases of the fungal arginine-biosynthetic pathway and urea cycle found in humans and fish; Region: DUF619-NAGS; cd04264 394221000991 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 394221000992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221000993 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 394221000994 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 394221000995 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 394221000996 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 394221000997 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 394221000998 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221000999 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 394221001000 agmatine deiminase; Region: agmatine_aguA; TIGR03380 394221001001 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221001002 N-carbamolyputrescine amidase; Region: PLN02747 394221001003 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 394221001004 putative active site; other site 394221001005 catalytic triad [active] 394221001006 putative dimer interface [polypeptide binding]; other site 394221001007 MarC family integral membrane protein; Region: MarC; cl00919 394221001008 Deoxyhypusine synthase; Region: DS; cl00826 394221001009 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 394221001010 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 394221001011 dimer interface [polypeptide binding]; other site 394221001012 active site 394221001013 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394221001014 catalytic residues [active] 394221001015 substrate binding site [chemical binding]; other site 394221001016 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 394221001017 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221001018 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 394221001019 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394221001020 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 394221001021 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 394221001022 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 394221001023 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 394221001024 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 394221001025 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 394221001026 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 394221001027 Walker A motif; other site 394221001028 ATP binding site [chemical binding]; other site 394221001029 Walker B motif; other site 394221001030 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 394221001031 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 394221001032 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 394221001033 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 394221001034 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 394221001035 Type II transport protein GspH; Region: GspH; pfam12019 394221001036 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 394221001037 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 394221001038 general secretion pathway protein J; Region: gspJ; TIGR01711 394221001039 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 394221001040 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 394221001041 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 394221001042 GspL periplasmic domain; Region: GspL_C; cl14909 394221001043 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 394221001044 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 394221001045 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 394221001046 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 394221001047 Walker A/P-loop; other site 394221001048 ATP binding site [chemical binding]; other site 394221001049 Q-loop/lid; other site 394221001050 ABC transporter signature motif; other site 394221001051 Walker B; other site 394221001052 D-loop; other site 394221001053 H-loop/switch region; other site 394221001054 NMT1-like family; Region: NMT1_2; cl15260 394221001055 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 394221001056 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 394221001057 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394221001058 dimer interface [polypeptide binding]; other site 394221001059 conserved gate region; other site 394221001060 ABC-ATPase subunit interface; other site 394221001061 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 394221001062 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394221001063 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 394221001064 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394221001065 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 394221001066 Proline dehydrogenase; Region: Pro_dh; cl03282 394221001067 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 394221001068 Glutamate binding site [chemical binding]; other site 394221001069 NAD binding site [chemical binding]; other site 394221001070 catalytic residues [active] 394221001071 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 394221001072 Class I ribonucleotide reductase; Region: RNR_I; cd01679 394221001073 active site 394221001074 dimer interface [polypeptide binding]; other site 394221001075 catalytic residues [active] 394221001076 effector binding site; other site 394221001077 R2 peptide binding site; other site 394221001078 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 394221001079 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 394221001080 dimer interface [polypeptide binding]; other site 394221001081 putative radical transfer pathway; other site 394221001082 diiron center [ion binding]; other site 394221001083 tyrosyl radical; other site 394221001084 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 394221001085 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394221001086 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394221001087 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 394221001088 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 394221001089 bifunctional aspartate kinase/diaminopimelate decarboxylase protein; Provisional; Region: PRK08961 394221001090 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 394221001091 nucleotide binding site [chemical binding]; other site 394221001092 substrate binding site [chemical binding]; other site 394221001093 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein; Region: ACT_AKiii-DAPDC_1; cd04935 394221001094 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC); Region: ACT_AKiii-DAPDC_2; cd04920 394221001095 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bifunctional Aspartate Kinase/Diaminopimelate Decarboxylase; Region: PLPDE_III_Bif_AspK_DapDC; cd06840 394221001096 active site 394221001097 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394221001098 substrate binding site [chemical binding]; other site 394221001099 catalytic residues [active] 394221001100 dimer interface [polypeptide binding]; other site 394221001101 AMP nucleosidase; Provisional; Region: PRK08292 394221001102 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 394221001103 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 394221001104 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 394221001105 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 394221001106 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 394221001107 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 394221001108 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 394221001109 chorismate binding enzyme; Region: Chorismate_bind; cl10555 394221001110 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cd00449 394221001111 homodimer interface [polypeptide binding]; other site 394221001112 substrate-cofactor binding pocket; other site 394221001113 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221001114 catalytic residue [active] 394221001115 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394221001116 TadE-like protein; Region: TadE; cl10688 394221001117 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394221001118 TadE-like protein; Region: TadE; cl10688 394221001119 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 394221001120 Flp/Fap pilin component; Region: Flp_Fap; cl01585 394221001121 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 394221001122 SAF domain; Region: SAF; cl00555 394221001123 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 394221001124 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 394221001125 BON domain; Region: BON; cl02771 394221001126 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 394221001127 Type IV pili component [Cell motility and secretion]; Region: COG5461; cl02279 394221001128 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 394221001129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 394221001130 active site 394221001131 phosphorylation site [posttranslational modification] 394221001132 intermolecular recognition site; other site 394221001133 dimerization interface [polypeptide binding]; other site 394221001134 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 394221001135 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 394221001136 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221001137 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 394221001138 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 394221001139 ATP binding site [chemical binding]; other site 394221001140 Walker A motif; other site 394221001141 hexamer interface [polypeptide binding]; other site 394221001142 Walker B motif; other site 394221001143 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 394221001144 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 394221001145 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 394221001146 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221001147 binding surface 394221001148 TPR motif; other site 394221001149 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221001150 binding surface 394221001151 TPR motif; other site 394221001152 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 394221001153 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 394221001154 interface (dimer of trimers) [polypeptide binding]; other site 394221001155 Substrate-binding/catalytic site; other site 394221001156 Zn-binding sites [ion binding]; other site 394221001157 Helix-turn-helix domains; Region: HTH; cl00088 394221001158 Bacterial SH3 domain; Region: SH3_3; cl02551 394221001159 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 394221001160 NlpC/P60 family; Region: NLPC_P60; cl11438 394221001161 Cytochrome c; Region: Cytochrom_C; cl11414 394221001162 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 394221001163 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 394221001164 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 394221001165 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 394221001166 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 394221001167 putative NADH binding site [chemical binding]; other site 394221001168 putative active site [active] 394221001169 nudix motif; other site 394221001170 putative metal binding site [ion binding]; other site 394221001171 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 394221001172 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221001173 Walker A motif; other site 394221001174 ATP binding site [chemical binding]; other site 394221001175 Walker B motif; other site 394221001176 arginine finger; other site 394221001177 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 394221001178 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 394221001179 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 394221001180 recombination protein RecR; Reviewed; Region: recR; PRK00076 394221001181 RecR protein; Region: RecR; pfam02132 394221001182 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 394221001183 putative active site [active] 394221001184 putative metal-binding site [ion binding]; other site 394221001185 tetramer interface [polypeptide binding]; other site 394221001186 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 394221001187 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 394221001188 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 394221001189 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 394221001190 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221001191 RmuC family; Region: RmuC; pfam02646 394221001192 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 394221001193 active site 394221001194 catalytic residues [active] 394221001195 metal binding site [ion binding]; metal-binding site 394221001196 Pirin-related protein [General function prediction only]; Region: COG1741 394221001197 Cupin domain; Region: Cupin_2; cl09118 394221001198 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 394221001199 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 394221001200 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 394221001201 putative active site [active] 394221001202 substrate binding site [chemical binding]; other site 394221001203 putative cosubstrate binding site; other site 394221001204 catalytic site [active] 394221001205 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 394221001206 substrate binding site [chemical binding]; other site 394221001207 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 394221001208 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 394221001209 dimerization interface 3.5A [polypeptide binding]; other site 394221001210 active site 394221001211 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 394221001212 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 394221001213 metal binding site [ion binding]; metal-binding site 394221001214 dimer interface [polypeptide binding]; other site 394221001215 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 394221001216 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394221001217 Coenzyme A binding pocket [chemical binding]; other site 394221001218 HI0933-like protein; Region: HI0933_like; pfam03486 394221001219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221001220 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 394221001221 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 394221001222 trimer interface [polypeptide binding]; other site 394221001223 active site 394221001224 substrate binding site [chemical binding]; other site 394221001225 CoA binding site [chemical binding]; other site 394221001226 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 394221001227 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 394221001228 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 394221001229 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 394221001230 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 394221001231 Predicted GTPase [General function prediction only]; Region: COG0218 394221001232 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 394221001233 G1 box; other site 394221001234 GTP/Mg2+ binding site [chemical binding]; other site 394221001235 Switch I region; other site 394221001236 G2 box; other site 394221001237 G3 box; other site 394221001238 Switch II region; other site 394221001239 G4 box; other site 394221001240 G5 box; other site 394221001241 membrane protein insertase; Provisional; Region: PRK01318 394221001242 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 394221001243 Ribonuclease P; Region: Ribonuclease_P; cl00457 394221001244 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 394221001245 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394221001246 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221001247 ATP binding site [chemical binding]; other site 394221001248 Mg2+ binding site [ion binding]; other site 394221001249 G-X-G motif; other site 394221001250 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 394221001251 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 394221001252 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 394221001253 putative active site pocket [active] 394221001254 cleavage site 394221001255 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 394221001256 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394221001257 dimer interface [polypeptide binding]; other site 394221001258 putative CheW interface [polypeptide binding]; other site 394221001259 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 394221001260 conserved cys residue [active] 394221001261 putative MFS family transporter protein; Provisional; Region: PRK03633 394221001262 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221001263 putative substrate translocation pore; other site 394221001264 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394221001265 Helix-turn-helix domains; Region: HTH; cl00088 394221001266 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 394221001267 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394221001268 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221001269 catalytic residue [active] 394221001270 Protein of unknown function (DUF819); Region: DUF819; cl02317 394221001271 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 394221001272 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 394221001273 active site 394221001274 Zn binding site [ion binding]; other site 394221001275 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 394221001276 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 394221001277 active site 394221001278 Zn binding site [ion binding]; other site 394221001279 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394221001280 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394221001281 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221001282 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 394221001283 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 394221001284 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221001285 dimer interface [polypeptide binding]; other site 394221001286 phosphorylation site [posttranslational modification] 394221001287 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221001288 ATP binding site [chemical binding]; other site 394221001289 Mg2+ binding site [ion binding]; other site 394221001290 G-X-G motif; other site 394221001291 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 394221001292 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 394221001293 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394221001294 dimer interface [polypeptide binding]; other site 394221001295 conserved gate region; other site 394221001296 putative PBP binding loops; other site 394221001297 ABC-ATPase subunit interface; other site 394221001298 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 394221001299 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 394221001300 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394221001301 dimer interface [polypeptide binding]; other site 394221001302 conserved gate region; other site 394221001303 putative PBP binding loops; other site 394221001304 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 394221001305 ABC-ATPase subunit interface; other site 394221001306 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 394221001307 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 394221001308 Walker A/P-loop; other site 394221001309 ATP binding site [chemical binding]; other site 394221001310 Q-loop/lid; other site 394221001311 ABC transporter signature motif; other site 394221001312 Walker B; other site 394221001313 D-loop; other site 394221001314 H-loop/switch region; other site 394221001315 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 394221001316 PhoU domain; Region: PhoU; pfam01895 394221001317 PhoU domain; Region: PhoU; pfam01895 394221001318 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 394221001319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221001320 active site 394221001321 phosphorylation site [posttranslational modification] 394221001322 intermolecular recognition site; other site 394221001323 dimerization interface [polypeptide binding]; other site 394221001324 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394221001325 DNA binding site [nucleotide binding] 394221001326 GcrA cell cycle regulator; Region: GcrA; cl11564 394221001327 ABC-2 type transporter; Region: ABC2_membrane; cl11417 394221001328 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 394221001329 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394221001330 inhibitor-cofactor binding pocket; inhibition site 394221001331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221001332 catalytic residue [active] 394221001333 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 394221001334 dimerization interface [polypeptide binding]; other site 394221001335 domain crossover interface; other site 394221001336 redox-dependent activation switch; other site 394221001337 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394221001338 metal binding site [ion binding]; metal-binding site 394221001339 active site 394221001340 I-site; other site 394221001341 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 394221001342 Cation transport protein; Region: TrkH; cl10514 394221001343 Protein of unknown function (DUF525); Region: DUF525; cl01119 394221001344 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 394221001345 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 394221001346 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 394221001347 trimer interface [polypeptide binding]; other site 394221001348 active site 394221001349 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 394221001350 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 394221001351 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221001352 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 394221001353 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221001354 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 394221001355 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221001356 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 394221001357 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 394221001358 DXD motif; other site 394221001359 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 394221001360 catalytic core [active] 394221001361 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 394221001362 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 394221001363 dimer interface [polypeptide binding]; other site 394221001364 decamer (pentamer of dimers) interface [polypeptide binding]; other site 394221001365 catalytic triad [active] 394221001366 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221001367 non-specific DNA binding site [nucleotide binding]; other site 394221001368 salt bridge; other site 394221001369 sequence-specific DNA binding site [nucleotide binding]; other site 394221001370 ABC-2 type transporter; Region: ABC2_membrane; cl11417 394221001371 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 394221001372 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 394221001373 Walker A/P-loop; other site 394221001374 ATP binding site [chemical binding]; other site 394221001375 Q-loop/lid; other site 394221001376 ABC transporter signature motif; other site 394221001377 Walker B; other site 394221001378 D-loop; other site 394221001379 H-loop/switch region; other site 394221001380 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221001381 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394221001382 Helix-turn-helix domains; Region: HTH; cl00088 394221001383 Domain of unknown function (DUF4281); Region: DUF4281; pfam14108 394221001384 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 394221001385 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 394221001386 active site 394221001387 nucleotide binding site [chemical binding]; other site 394221001388 HIGH motif; other site 394221001389 KMSKS motif; other site 394221001390 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221001391 non-specific DNA binding site [nucleotide binding]; other site 394221001392 salt bridge; other site 394221001393 sequence-specific DNA binding site [nucleotide binding]; other site 394221001394 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221001395 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 394221001396 Predicted transcriptional regulator [Transcription]; Region: COG2932 394221001397 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 394221001398 Catalytic site [active] 394221001399 Protein of unknown function (DUF952); Region: DUF952; cl01393 394221001400 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 394221001401 quinone interaction residues [chemical binding]; other site 394221001402 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 394221001403 active site 394221001404 catalytic residues [active] 394221001405 FMN binding site [chemical binding]; other site 394221001406 substrate binding site [chemical binding]; other site 394221001407 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 394221001408 MatE; Region: MatE; cl10513 394221001409 MatE; Region: MatE; cl10513 394221001410 Protein of unknown function, DUF393; Region: DUF393; cl01136 394221001411 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 394221001412 CoenzymeA binding site [chemical binding]; other site 394221001413 subunit interaction site [polypeptide binding]; other site 394221001414 PHB binding site; other site 394221001415 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 394221001416 CoenzymeA binding site [chemical binding]; other site 394221001417 subunit interaction site [polypeptide binding]; other site 394221001418 PHB binding site; other site 394221001419 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221001420 Response regulator receiver domain; Region: Response_reg; pfam00072 394221001421 active site 394221001422 phosphorylation site [posttranslational modification] 394221001423 intermolecular recognition site; other site 394221001424 dimerization interface [polypeptide binding]; other site 394221001425 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 394221001426 Mechanosensitive ion channel; Region: MS_channel; pfam00924 394221001427 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 394221001428 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394221001429 ATP binding site [chemical binding]; other site 394221001430 putative Mg++ binding site [ion binding]; other site 394221001431 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394221001432 nucleotide binding region [chemical binding]; other site 394221001433 ATP-binding site [chemical binding]; other site 394221001434 DEAD/H associated; Region: DEAD_assoc; pfam08494 394221001435 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 394221001436 putative active site [active] 394221001437 putative metal binding site [ion binding]; other site 394221001438 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 394221001439 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 394221001440 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 394221001441 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 394221001442 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 394221001443 Sel1 repeat; Region: Sel1; cl02723 394221001444 Sel1 repeat; Region: Sel1; cl02723 394221001445 Sel1 repeat; Region: Sel1; cl02723 394221001446 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 394221001447 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 394221001448 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 394221001449 DNA binding residues [nucleotide binding] 394221001450 putative dimer interface [polypeptide binding]; other site 394221001451 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 394221001452 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 394221001453 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394221001454 active site 394221001455 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 394221001456 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 394221001457 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394221001458 active site 394221001459 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 394221001460 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 394221001461 putative active site [active] 394221001462 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 394221001463 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 394221001464 dimer interface [polypeptide binding]; other site 394221001465 active site 394221001466 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 394221001467 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394221001468 substrate binding site [chemical binding]; other site 394221001469 oxyanion hole (OAH) forming residues; other site 394221001470 trimer interface [polypeptide binding]; other site 394221001471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221001472 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 394221001473 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 394221001474 active site 394221001475 NDP-hexose 2,3-dehydratase; Region: Hexose_dehydrat; pfam03559 394221001476 NDP-hexose 2,3-dehydratase; Region: Hexose_dehydrat; pfam03559 394221001477 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394221001478 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394221001479 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 394221001480 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 394221001481 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 394221001482 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 394221001483 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 394221001484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394221001485 Helix-turn-helix domains; Region: HTH; cl00088 394221001486 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394221001487 putative effector binding pocket; other site 394221001488 dimerization interface [polypeptide binding]; other site 394221001489 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 394221001490 dimer interface [polypeptide binding]; other site 394221001491 substrate binding site [chemical binding]; other site 394221001492 ATP binding site [chemical binding]; other site 394221001493 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 394221001494 EamA-like transporter family; Region: EamA; cl01037 394221001495 EamA-like transporter family; Region: EamA; cl01037 394221001496 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 394221001497 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394221001498 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221001499 catalytic residue [active] 394221001500 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 394221001501 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221001502 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 394221001503 catalytic residue [active] 394221001504 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 394221001505 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 394221001506 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 394221001507 GDP-binding site [chemical binding]; other site 394221001508 ACT binding site; other site 394221001509 IMP binding site; other site 394221001510 OpgC protein; Region: OpgC_C; cl00792 394221001511 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394221001512 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221001513 Protein of unknown function (DUF419); Region: DUF419; cl15265 394221001514 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 394221001515 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 394221001516 ThiC-associated domain; Region: ThiC-associated; pfam13667 394221001517 ThiC family; Region: ThiC; cl08031 394221001518 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221001519 non-specific DNA binding site [nucleotide binding]; other site 394221001520 salt bridge; other site 394221001521 sequence-specific DNA binding site [nucleotide binding]; other site 394221001522 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 394221001523 Protein of unknown function, DUF481; Region: DUF481; cl01213 394221001524 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 394221001525 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394221001526 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394221001527 DNA binding residues [nucleotide binding] 394221001528 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 394221001529 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 394221001530 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394221001531 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394221001532 DNA binding residues [nucleotide binding] 394221001533 YhhN-like protein; Region: YhhN; cl01505 394221001534 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 394221001535 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 394221001536 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221001537 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 394221001538 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 394221001539 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 394221001540 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394221001541 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 394221001542 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 394221001543 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221001544 Walker A/P-loop; other site 394221001545 ATP binding site [chemical binding]; other site 394221001546 Q-loop/lid; other site 394221001547 ABC transporter signature motif; other site 394221001548 Walker B; other site 394221001549 D-loop; other site 394221001550 H-loop/switch region; other site 394221001551 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 394221001552 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 394221001553 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 394221001554 metal binding site 2 [ion binding]; metal-binding site 394221001555 putative DNA binding helix; other site 394221001556 metal binding site 1 [ion binding]; metal-binding site 394221001557 dimer interface [polypeptide binding]; other site 394221001558 structural Zn2+ binding site [ion binding]; other site 394221001559 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221001560 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221001561 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 394221001562 SapC; Region: SapC; pfam07277 394221001563 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 394221001564 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 394221001565 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 394221001566 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 394221001567 DsbD alpha interface [polypeptide binding]; other site 394221001568 catalytic residues [active] 394221001569 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 394221001570 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 394221001571 dimer interface [polypeptide binding]; other site 394221001572 motif 1; other site 394221001573 active site 394221001574 motif 2; other site 394221001575 motif 3; other site 394221001576 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 394221001577 anticodon binding site; other site 394221001578 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 394221001579 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 394221001580 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221001581 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221001582 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 394221001583 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 394221001584 ring oligomerisation interface [polypeptide binding]; other site 394221001585 ATP/Mg binding site [chemical binding]; other site 394221001586 stacking interactions; other site 394221001587 hinge regions; other site 394221001588 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 394221001589 oligomerisation interface [polypeptide binding]; other site 394221001590 mobile loop; other site 394221001591 roof hairpin; other site 394221001592 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394221001593 ligand binding site [chemical binding]; other site 394221001594 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394221001595 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 394221001596 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 394221001597 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 394221001598 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 394221001599 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 394221001600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221001601 active site 394221001602 phosphorylation site [posttranslational modification] 394221001603 intermolecular recognition site; other site 394221001604 dimerization interface [polypeptide binding]; other site 394221001605 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 394221001606 dimer interaction site [polypeptide binding]; other site 394221001607 substrate-binding tunnel; other site 394221001608 active site 394221001609 catalytic site [active] 394221001610 substrate binding site [chemical binding]; other site 394221001611 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 394221001612 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 394221001613 active site 394221001614 Riboflavin kinase; Region: Flavokinase; cl03312 394221001615 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 394221001616 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 394221001617 active site 394221001618 HIGH motif; other site 394221001619 nucleotide binding site [chemical binding]; other site 394221001620 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 394221001621 active site 394221001622 KMSKS motif; other site 394221001623 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 394221001624 tRNA binding surface [nucleotide binding]; other site 394221001625 anticodon binding site; other site 394221001626 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 394221001627 lipoprotein signal peptidase; Provisional; Region: PRK14787 394221001628 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 394221001629 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 394221001630 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 394221001631 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 394221001632 ATP binding site [chemical binding]; other site 394221001633 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 394221001634 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 394221001635 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 394221001636 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394221001637 RNA binding surface [nucleotide binding]; other site 394221001638 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 394221001639 active site 394221001640 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 394221001641 nucleoside/Zn binding site; other site 394221001642 dimer interface [polypeptide binding]; other site 394221001643 catalytic motif [active] 394221001644 TfoX N-terminal domain; Region: TfoX_N; cl01167 394221001645 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221001646 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 394221001647 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221001648 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 394221001649 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 394221001650 putative active site [active] 394221001651 putative substrate binding site [chemical binding]; other site 394221001652 ATP binding site [chemical binding]; other site 394221001653 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 394221001654 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221001655 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 394221001656 active site 394221001657 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 394221001658 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 394221001659 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221001660 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 394221001661 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 394221001662 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 394221001663 generic binding surface I; other site 394221001664 generic binding surface II; other site 394221001665 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 394221001666 Peptidase family M23; Region: Peptidase_M23; pfam01551 394221001667 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 394221001668 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 394221001669 putative acyl-acceptor binding pocket; other site 394221001670 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 394221001671 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 394221001672 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 394221001673 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 394221001674 putative acyl-acceptor binding pocket; other site 394221001675 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 394221001676 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221001677 PAS fold; Region: PAS_3; pfam08447 394221001678 putative active site [active] 394221001679 heme pocket [chemical binding]; other site 394221001680 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221001681 dimer interface [polypeptide binding]; other site 394221001682 phosphorylation site [posttranslational modification] 394221001683 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221001684 ATP binding site [chemical binding]; other site 394221001685 Mg2+ binding site [ion binding]; other site 394221001686 G-X-G motif; other site 394221001687 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 394221001688 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 394221001689 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221001690 Walker A/P-loop; other site 394221001691 ATP binding site [chemical binding]; other site 394221001692 Q-loop/lid; other site 394221001693 ABC transporter signature motif; other site 394221001694 Walker B; other site 394221001695 D-loop; other site 394221001696 H-loop/switch region; other site 394221001697 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 394221001698 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 394221001699 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 394221001700 MAPEG family; Region: MAPEG; cl09190 394221001701 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 394221001702 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 394221001703 catalytic residues [active] 394221001704 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 394221001705 aminotransferase; Validated; Region: PRK09148 394221001706 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394221001707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221001708 homodimer interface [polypeptide binding]; other site 394221001709 catalytic residue [active] 394221001710 MAPEG family; Region: MAPEG; cl09190 394221001711 peptide chain release factor 1; Validated; Region: prfA; PRK00591 394221001712 RF-1 domain; Region: RF-1; cl02875 394221001713 RF-1 domain; Region: RF-1; cl02875 394221001714 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 394221001715 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221001716 S-adenosylmethionine binding site [chemical binding]; other site 394221001717 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 394221001718 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 394221001719 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 394221001720 MOSC domain; Region: MOSC; pfam03473 394221001721 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 394221001722 Clp amino terminal domain; Region: Clp_N; pfam02861 394221001723 Clp amino terminal domain; Region: Clp_N; pfam02861 394221001724 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221001725 Walker A motif; other site 394221001726 ATP binding site [chemical binding]; other site 394221001727 Walker B motif; other site 394221001728 arginine finger; other site 394221001729 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221001730 Walker A motif; other site 394221001731 ATP binding site [chemical binding]; other site 394221001732 Walker B motif; other site 394221001733 arginine finger; other site 394221001734 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 394221001735 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 394221001736 Membrane transport protein; Region: Mem_trans; cl09117 394221001737 Low molecular weight phosphatase family; Region: LMWPc; cl00105 394221001738 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 394221001739 active site 394221001740 Peptidase family M23; Region: Peptidase_M23; pfam01551 394221001741 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 394221001742 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 394221001743 putative binding surface; other site 394221001744 active site 394221001745 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 394221001746 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221001747 ATP binding site [chemical binding]; other site 394221001748 Mg2+ binding site [ion binding]; other site 394221001749 G-X-G motif; other site 394221001750 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 394221001751 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 394221001752 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 394221001753 putative CheA interaction surface; other site 394221001754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221001755 Response regulator receiver domain; Region: Response_reg; pfam00072 394221001756 active site 394221001757 phosphorylation site [posttranslational modification] 394221001758 intermolecular recognition site; other site 394221001759 dimerization interface [polypeptide binding]; other site 394221001760 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 394221001761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221001762 active site 394221001763 phosphorylation site [posttranslational modification] 394221001764 intermolecular recognition site; other site 394221001765 dimerization interface [polypeptide binding]; other site 394221001766 CheB methylesterase; Region: CheB_methylest; pfam01339 394221001767 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 394221001768 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 394221001769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221001770 Helix-turn-helix domain; Region: HTH_18; pfam12833 394221001771 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394221001772 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 394221001773 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 394221001774 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394221001775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221001776 active site 394221001777 phosphorylation site [posttranslational modification] 394221001778 intermolecular recognition site; other site 394221001779 dimerization interface [polypeptide binding]; other site 394221001780 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394221001781 DNA binding site [nucleotide binding] 394221001782 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 394221001783 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 394221001784 Walker A motif/ATP binding site; other site 394221001785 Walker B motif; other site 394221001786 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 394221001787 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 394221001788 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394221001789 N-terminal plug; other site 394221001790 ligand-binding site [chemical binding]; other site 394221001791 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 394221001792 Helix-turn-helix domains; Region: HTH; cl00088 394221001793 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 394221001794 substrate binding pocket [chemical binding]; other site 394221001795 dimerization interface [polypeptide binding]; other site 394221001796 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 394221001797 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 394221001798 Protein export membrane protein; Region: SecD_SecF; cl14618 394221001799 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 394221001800 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 394221001801 P-loop; other site 394221001802 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 394221001803 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 394221001804 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221001805 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 394221001806 FHIPEP family; Region: FHIPEP; pfam00771 394221001807 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 394221001808 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221001809 Walker A motif; other site 394221001810 ATP binding site [chemical binding]; other site 394221001811 Walker B motif; other site 394221001812 arginine finger; other site 394221001813 Helix-turn-helix domains; Region: HTH; cl00088 394221001814 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 394221001815 flagellar assembly protein H; Validated; Region: fliH; PRK06032 394221001816 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 394221001817 FliG C-terminal domain; Region: FliG_C; pfam01706 394221001818 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 394221001819 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 394221001820 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 394221001821 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 394221001822 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 394221001823 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 394221001824 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 394221001825 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 394221001826 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 394221001827 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 394221001828 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 394221001829 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 394221001830 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 394221001831 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06665 394221001832 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 394221001833 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 394221001834 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 394221001835 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 394221001836 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 394221001837 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 394221001838 Ligand Binding Site [chemical binding]; other site 394221001839 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394221001840 Sel1 repeat; Region: Sel1; cl02723 394221001841 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394221001842 CAAX protease self-immunity; Region: Abi; cl00558 394221001843 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 394221001844 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 394221001845 dimer interface [polypeptide binding]; other site 394221001846 active site 394221001847 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 394221001848 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 394221001849 Helix-turn-helix domains; Region: HTH; cl00088 394221001850 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394221001851 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221001852 putative DNA binding site [nucleotide binding]; other site 394221001853 putative Zn2+ binding site [ion binding]; other site 394221001854 Helix-turn-helix domains; Region: HTH; cl00088 394221001855 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 394221001856 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 394221001857 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 394221001858 tetramer interface [polypeptide binding]; other site 394221001859 TPP-binding site [chemical binding]; other site 394221001860 heterodimer interface [polypeptide binding]; other site 394221001861 phosphorylation loop region [posttranslational modification] 394221001862 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 394221001863 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 394221001864 alpha subunit interface [polypeptide binding]; other site 394221001865 TPP binding site [chemical binding]; other site 394221001866 heterodimer interface [polypeptide binding]; other site 394221001867 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394221001868 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 394221001869 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394221001870 E3 interaction surface; other site 394221001871 lipoyl attachment site [posttranslational modification]; other site 394221001872 e3 binding domain; Region: E3_binding; pfam02817 394221001873 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 394221001874 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 394221001875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394221001876 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394221001877 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 394221001878 active site 394221001879 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 394221001880 Gram-negative bacterial tonB protein; Region: TonB; cl10048 394221001881 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 394221001882 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 394221001883 dimerization interface [polypeptide binding]; other site 394221001884 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394221001885 dimer interface [polypeptide binding]; other site 394221001886 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 394221001887 putative CheW interface [polypeptide binding]; other site 394221001888 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 394221001889 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221001890 dimer interface [polypeptide binding]; other site 394221001891 phosphorylation site [posttranslational modification] 394221001892 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221001893 ATP binding site [chemical binding]; other site 394221001894 Mg2+ binding site [ion binding]; other site 394221001895 G-X-G motif; other site 394221001896 Response regulator receiver domain; Region: Response_reg; pfam00072 394221001897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221001898 active site 394221001899 phosphorylation site [posttranslational modification] 394221001900 intermolecular recognition site; other site 394221001901 dimerization interface [polypeptide binding]; other site 394221001902 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 394221001903 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 394221001904 Ligand Binding Site [chemical binding]; other site 394221001905 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 394221001906 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394221001907 FeS/SAM binding site; other site 394221001908 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 394221001909 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 394221001910 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 394221001911 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 394221001912 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 394221001913 MoxR-like ATPases [General function prediction only]; Region: COG0714 394221001914 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221001915 Walker A motif; other site 394221001916 ATP binding site [chemical binding]; other site 394221001917 Walker B motif; other site 394221001918 arginine finger; other site 394221001919 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 394221001920 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 394221001921 putative active site [active] 394221001922 putative CoA binding site [chemical binding]; other site 394221001923 nudix motif; other site 394221001924 metal binding site [ion binding]; metal-binding site 394221001925 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 394221001926 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 394221001927 active site 394221001928 NTP binding site [chemical binding]; other site 394221001929 metal binding triad [ion binding]; metal-binding site 394221001930 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 394221001931 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 394221001932 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 394221001933 Active site serine [active] 394221001934 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394221001935 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 394221001936 conserved cys residue [active] 394221001937 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394221001938 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394221001939 CAAX protease self-immunity; Region: Abi; cl00558 394221001940 Cupin domain; Region: Cupin_2; cl09118 394221001941 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 394221001942 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 394221001943 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 394221001944 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 394221001945 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 394221001946 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 394221001947 [2Fe-2S] cluster binding site [ion binding]; other site 394221001948 cytochrome b; Provisional; Region: CYTB; MTH00145 394221001949 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 394221001950 Qi binding site; other site 394221001951 intrachain domain interface; other site 394221001952 interchain domain interface [polypeptide binding]; other site 394221001953 heme bH binding site [chemical binding]; other site 394221001954 heme bL binding site [chemical binding]; other site 394221001955 Qo binding site; other site 394221001956 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 394221001957 interchain domain interface [polypeptide binding]; other site 394221001958 intrachain domain interface; other site 394221001959 Qi binding site; other site 394221001960 Qo binding site; other site 394221001961 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 394221001962 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 394221001963 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 394221001964 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 394221001965 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 394221001966 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394221001967 putative C-terminal domain interface [polypeptide binding]; other site 394221001968 putative GSH binding site (G-site) [chemical binding]; other site 394221001969 putative dimer interface [polypeptide binding]; other site 394221001970 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 394221001971 putative N-terminal domain interface [polypeptide binding]; other site 394221001972 putative dimer interface [polypeptide binding]; other site 394221001973 putative substrate binding pocket (H-site) [chemical binding]; other site 394221001974 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 394221001975 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394221001976 active site 394221001977 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 394221001978 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 394221001979 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 394221001980 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 394221001981 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 394221001982 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 394221001983 Walker A/P-loop; other site 394221001984 ATP binding site [chemical binding]; other site 394221001985 Q-loop/lid; other site 394221001986 ABC transporter signature motif; other site 394221001987 Walker B; other site 394221001988 D-loop; other site 394221001989 H-loop/switch region; other site 394221001990 ABC-2 type transporter; Region: ABC2_membrane; cl11417 394221001991 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 394221001992 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 394221001993 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 394221001994 enoyl-CoA hydratase; Provisional; Region: PRK08260 394221001995 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394221001996 substrate binding site [chemical binding]; other site 394221001997 oxyanion hole (OAH) forming residues; other site 394221001998 trimer interface [polypeptide binding]; other site 394221001999 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 394221002000 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221002001 putative substrate translocation pore; other site 394221002002 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 394221002003 apolar tunnel; other site 394221002004 heme binding site [chemical binding]; other site 394221002005 dimerization interface [polypeptide binding]; other site 394221002006 GTP-binding protein YchF; Reviewed; Region: PRK09601 394221002007 YchF GTPase; Region: YchF; cd01900 394221002008 G1 box; other site 394221002009 GTP/Mg2+ binding site [chemical binding]; other site 394221002010 Switch I region; other site 394221002011 G2 box; other site 394221002012 Switch II region; other site 394221002013 G3 box; other site 394221002014 G4 box; other site 394221002015 G5 box; other site 394221002016 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 394221002017 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 394221002018 putative active site [active] 394221002019 catalytic residue [active] 394221002020 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 394221002021 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 394221002022 5S rRNA interface [nucleotide binding]; other site 394221002023 CTC domain interface [polypeptide binding]; other site 394221002024 L16 interface [polypeptide binding]; other site 394221002025 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 394221002026 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 394221002027 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394221002028 active site 394221002029 Uncharacterized conserved protein [Function unknown]; Region: COG1565 394221002030 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 394221002031 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 394221002032 Membrane fusogenic activity; Region: BMFP; cl01115 394221002033 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 394221002034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221002035 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 394221002036 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 394221002037 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 394221002038 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221002039 dimer interface [polypeptide binding]; other site 394221002040 phosphorylation site [posttranslational modification] 394221002041 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221002042 ATP binding site [chemical binding]; other site 394221002043 Mg2+ binding site [ion binding]; other site 394221002044 G-X-G motif; other site 394221002045 osmolarity response regulator; Provisional; Region: ompR; PRK09468 394221002046 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221002047 active site 394221002048 phosphorylation site [posttranslational modification] 394221002049 intermolecular recognition site; other site 394221002050 dimerization interface [polypeptide binding]; other site 394221002051 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394221002052 DNA binding site [nucleotide binding] 394221002053 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 394221002054 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 394221002055 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394221002056 active site 394221002057 motif I; other site 394221002058 motif II; other site 394221002059 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 394221002060 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 394221002061 GIY-YIG motif/motif A; other site 394221002062 active site 394221002063 catalytic site [active] 394221002064 putative DNA binding site [nucleotide binding]; other site 394221002065 metal binding site [ion binding]; metal-binding site 394221002066 UvrB/uvrC motif; Region: UVR; pfam02151 394221002067 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 394221002068 pteridine reductase; Provisional; Region: PRK09135 394221002069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221002070 NAD(P) binding site [chemical binding]; other site 394221002071 active site 394221002072 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 394221002073 Predicted membrane protein [Function unknown]; Region: COG2311 394221002074 Protein of unknown function (DUF418); Region: DUF418; cl12135 394221002075 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 394221002076 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221002077 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 394221002078 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 394221002079 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 394221002080 nudix motif; other site 394221002081 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 394221002082 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221002083 putative active site [active] 394221002084 heme pocket [chemical binding]; other site 394221002085 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221002086 dimer interface [polypeptide binding]; other site 394221002087 phosphorylation site [posttranslational modification] 394221002088 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221002089 ATP binding site [chemical binding]; other site 394221002090 G-X-G motif; other site 394221002091 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221002092 dimer interface [polypeptide binding]; other site 394221002093 phosphorylation site [posttranslational modification] 394221002094 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221002095 ATP binding site [chemical binding]; other site 394221002096 Mg2+ binding site [ion binding]; other site 394221002097 G-X-G motif; other site 394221002098 Response regulator receiver domain; Region: Response_reg; pfam00072 394221002099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221002100 active site 394221002101 phosphorylation site [posttranslational modification] 394221002102 intermolecular recognition site; other site 394221002103 dimerization interface [polypeptide binding]; other site 394221002104 Putative esterase; Region: Esterase; pfam00756 394221002105 Predicted esterase [General function prediction only]; Region: COG0627 394221002106 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394221002107 active site 394221002108 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 394221002109 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 394221002110 dimerization interface [polypeptide binding]; other site 394221002111 active site 394221002112 L-aspartate oxidase; Provisional; Region: PRK07512 394221002113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221002114 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 394221002115 Quinolinate synthetase A protein; Region: NadA; cl00420 394221002116 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 394221002117 active site 394221002118 Killing trait; Region: RebB; pfam11747 394221002119 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 394221002120 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 394221002121 translocation protein TolB; Provisional; Region: tolB; PRK02889 394221002122 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 394221002123 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 394221002124 dimer interface [polypeptide binding]; other site 394221002125 active site 394221002126 CoA binding pocket [chemical binding]; other site 394221002127 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 394221002128 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221002129 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 394221002130 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 394221002131 dimer interface [polypeptide binding]; other site 394221002132 active site 394221002133 CoA binding pocket [chemical binding]; other site 394221002134 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 394221002135 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 394221002136 substrate binding site [chemical binding]; other site 394221002137 catalytic Zn binding site [ion binding]; other site 394221002138 NAD binding site [chemical binding]; other site 394221002139 structural Zn binding site [ion binding]; other site 394221002140 dimer interface [polypeptide binding]; other site 394221002141 hypothetical protein; Provisional; Region: PRK07908 394221002142 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 394221002143 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 394221002144 putative active site [active] 394221002145 homotetrameric interface [polypeptide binding]; other site 394221002146 metal binding site [ion binding]; metal-binding site 394221002147 Predicted esterase [General function prediction only]; Region: COG0627 394221002148 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221002149 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 394221002150 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 394221002151 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221002152 PAS domain; Region: PAS_9; pfam13426 394221002153 putative active site [active] 394221002154 heme pocket [chemical binding]; other site 394221002155 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221002156 PAS domain; Region: PAS_9; pfam13426 394221002157 putative active site [active] 394221002158 heme pocket [chemical binding]; other site 394221002159 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394221002160 dimer interface [polypeptide binding]; other site 394221002161 putative CheW interface [polypeptide binding]; other site 394221002162 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 394221002163 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 394221002164 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 394221002165 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 394221002166 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 394221002167 putative active site [active] 394221002168 dihydroorotase; Validated; Region: PRK09060 394221002169 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221002170 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 394221002171 active site 394221002172 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 394221002173 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 394221002174 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 394221002175 FtsX-like permease family; Region: FtsX; cl15850 394221002176 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 394221002177 FtsX-like permease family; Region: FtsX; cl15850 394221002178 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 394221002179 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 394221002180 Walker A/P-loop; other site 394221002181 ATP binding site [chemical binding]; other site 394221002182 Q-loop/lid; other site 394221002183 ABC transporter signature motif; other site 394221002184 Walker B; other site 394221002185 D-loop; other site 394221002186 H-loop/switch region; other site 394221002187 HlyD family secretion protein; Region: HlyD; pfam00529 394221002188 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221002189 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221002190 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221002191 non-specific DNA binding site [nucleotide binding]; other site 394221002192 salt bridge; other site 394221002193 sequence-specific DNA binding site [nucleotide binding]; other site 394221002194 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 394221002195 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 394221002196 nudix motif; other site 394221002197 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221002198 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 394221002199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221002200 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 394221002201 NAD(P) binding site [chemical binding]; other site 394221002202 active site 394221002203 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 394221002204 GIY-YIG motif/motif A; other site 394221002205 putative active site [active] 394221002206 putative metal binding site [ion binding]; other site 394221002207 Protein of unknown function (DUF328); Region: DUF328; cl01143 394221002208 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 394221002209 putative active site [active] 394221002210 putative catalytic site [active] 394221002211 putative Mg binding site IVb [ion binding]; other site 394221002212 putative phosphate binding site [ion binding]; other site 394221002213 putative DNA binding site [nucleotide binding]; other site 394221002214 putative Mg binding site IVa [ion binding]; other site 394221002215 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 394221002216 FAD binding domain; Region: FAD_binding_4; pfam01565 394221002217 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 394221002218 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 394221002219 YceI-like domain; Region: YceI; cl01001 394221002220 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 394221002221 YceI-like domain; Region: YceI; cl01001 394221002222 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 394221002223 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 394221002224 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394221002225 active site 394221002226 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 394221002227 Predicted membrane protein [Function unknown]; Region: COG3671 394221002228 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 394221002229 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 394221002230 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 394221002231 Catalytic site [active] 394221002232 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 394221002233 Catalytic site [active] 394221002234 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 394221002235 short chain dehydrogenase; Provisional; Region: PRK08278 394221002236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221002237 NAD(P) binding site [chemical binding]; other site 394221002238 active site 394221002239 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394221002240 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394221002241 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 394221002242 SET domain; Region: SET; cl02566 394221002243 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 394221002244 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 394221002245 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 394221002246 catalytic core [active] 394221002247 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 394221002248 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 394221002249 dimer interface [polypeptide binding]; other site 394221002250 putative tRNA-binding site [nucleotide binding]; other site 394221002251 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 394221002252 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 394221002253 substrate binding pocket [chemical binding]; other site 394221002254 chain length determination region; other site 394221002255 substrate-Mg2+ binding site; other site 394221002256 catalytic residues [active] 394221002257 aspartate-rich region 1; other site 394221002258 active site lid residues [active] 394221002259 aspartate-rich region 2; other site 394221002260 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 394221002261 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 394221002262 TPP-binding site; other site 394221002263 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 394221002264 PYR/PP interface [polypeptide binding]; other site 394221002265 dimer interface [polypeptide binding]; other site 394221002266 TPP binding site [chemical binding]; other site 394221002267 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394221002268 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 394221002269 Ligand Binding Site [chemical binding]; other site 394221002270 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 394221002271 Ligand Binding Site [chemical binding]; other site 394221002272 Sulfate transporter family; Region: Sulfate_transp; cl15842 394221002273 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 394221002274 Sulfate transporter family; Region: Sulfate_transp; cl15842 394221002275 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 394221002276 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 394221002277 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394221002278 RNA binding surface [nucleotide binding]; other site 394221002279 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 394221002280 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 394221002281 Tetramer interface [polypeptide binding]; other site 394221002282 active site 394221002283 FMN-binding site [chemical binding]; other site 394221002284 chaperone protein DnaJ; Provisional; Region: PRK14299 394221002285 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 394221002286 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 394221002287 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 394221002288 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 394221002289 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 394221002290 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 394221002291 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 394221002292 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394221002293 dimer interface [polypeptide binding]; other site 394221002294 conserved gate region; other site 394221002295 putative PBP binding loops; other site 394221002296 ABC-ATPase subunit interface; other site 394221002297 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 394221002298 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 394221002299 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394221002300 dimer interface [polypeptide binding]; other site 394221002301 conserved gate region; other site 394221002302 putative PBP binding loops; other site 394221002303 ABC-ATPase subunit interface; other site 394221002304 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 394221002305 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 394221002306 peptide binding site [polypeptide binding]; other site 394221002307 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 394221002308 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 394221002309 tandem repeat interface [polypeptide binding]; other site 394221002310 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 394221002311 oligomer interface [polypeptide binding]; other site 394221002312 active site residues [active] 394221002313 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 394221002314 tandem repeat interface [polypeptide binding]; other site 394221002315 oligomer interface [polypeptide binding]; other site 394221002316 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 394221002317 active site residues [active] 394221002318 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 394221002319 Tup N-terminal; Region: Tup_N; pfam08581 394221002320 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 394221002321 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 394221002322 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 394221002323 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 394221002324 Gram-negative bacterial tonB protein; Region: TonB; cl10048 394221002325 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221002326 TPR motif; other site 394221002327 binding surface 394221002328 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221002329 binding surface 394221002330 TPR motif; other site 394221002331 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 394221002332 Gram-negative bacterial tonB protein; Region: TonB; cl10048 394221002333 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 394221002334 GIY-YIG motif/motif A; other site 394221002335 putative active site [active] 394221002336 putative metal binding site [ion binding]; other site 394221002337 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 394221002338 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221002339 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 394221002340 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 394221002341 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221002342 putative substrate translocation pore; other site 394221002343 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 394221002344 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 394221002345 GIY-YIG motif/motif A; other site 394221002346 putative active site [active] 394221002347 putative metal binding site [ion binding]; other site 394221002348 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 394221002349 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 394221002350 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 394221002351 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12504 394221002352 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 394221002353 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 394221002354 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 394221002355 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 394221002356 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 394221002357 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 394221002358 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 394221002359 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 394221002360 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 394221002361 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 394221002362 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 394221002363 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 394221002364 DnaA box-binding interface [nucleotide binding]; other site 394221002365 Fe-S metabolism associated domain; Region: SufE; cl00951 394221002366 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 394221002367 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 394221002368 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221002369 dimer interface [polypeptide binding]; other site 394221002370 phosphorylation site [posttranslational modification] 394221002371 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221002372 ATP binding site [chemical binding]; other site 394221002373 Mg2+ binding site [ion binding]; other site 394221002374 G-X-G motif; other site 394221002375 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 394221002376 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 394221002377 ATP binding site [chemical binding]; other site 394221002378 Mg++ binding site [ion binding]; other site 394221002379 motif III; other site 394221002380 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394221002381 nucleotide binding region [chemical binding]; other site 394221002382 ATP-binding site [chemical binding]; other site 394221002383 DbpA RNA binding domain; Region: DbpA; pfam03880 394221002384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221002385 intermolecular recognition site; other site 394221002386 active site 394221002387 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221002388 dimer interface [polypeptide binding]; other site 394221002389 phosphorylation site [posttranslational modification] 394221002390 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221002391 ATP binding site [chemical binding]; other site 394221002392 Mg2+ binding site [ion binding]; other site 394221002393 G-X-G motif; other site 394221002394 CHASE domain; Region: CHASE; cl01369 394221002395 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221002396 dimer interface [polypeptide binding]; other site 394221002397 phosphorylation site [posttranslational modification] 394221002398 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221002399 ATP binding site [chemical binding]; other site 394221002400 Mg2+ binding site [ion binding]; other site 394221002401 G-X-G motif; other site 394221002402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221002403 active site 394221002404 phosphorylation site [posttranslational modification] 394221002405 intermolecular recognition site; other site 394221002406 dimerization interface [polypeptide binding]; other site 394221002407 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 394221002408 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 394221002409 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 394221002410 ABC transporter; Region: ABC_tran_2; pfam12848 394221002411 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 394221002412 C-terminal domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_C; cd10317 394221002413 substrate binding site [chemical binding]; other site 394221002414 Ca binding site [ion binding]; other site 394221002415 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 394221002416 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 394221002417 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 394221002418 G1 box; other site 394221002419 putative GEF interaction site [polypeptide binding]; other site 394221002420 GTP/Mg2+ binding site [chemical binding]; other site 394221002421 Switch I region; other site 394221002422 G2 box; other site 394221002423 G3 box; other site 394221002424 Switch II region; other site 394221002425 G4 box; other site 394221002426 G5 box; other site 394221002427 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 394221002428 Mechanosensitive ion channel; Region: MS_channel; pfam00924 394221002429 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 394221002430 PAN/APPLE-like domain; present in N-terminal (N) domains of plasminogen/ hepatocyte growth factor proteins, plasma prekallikrein/coagulation factor XI and microneme antigen proteins, plant receptor-like protein kinases, and various nematode and leech...; Region: PAN_APPLE; cl00112 394221002431 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394221002432 metal binding site [ion binding]; metal-binding site 394221002433 active site 394221002434 I-site; other site 394221002435 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394221002436 Ion transport protein; Region: Ion_trans; pfam00520 394221002437 Polycystin cation channel; Region: PKD_channel; pfam08016 394221002438 Transglycosylase; Region: Transgly; cl07896 394221002439 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 394221002440 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221002441 Flagellin N-methylase; Region: FliB; cl00497 394221002442 Uncharacterized conserved protein [Function unknown]; Region: COG5323 394221002443 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 394221002444 Phage-related protein [Function unknown]; Region: COG4695; cl01923 394221002445 Phage portal protein; Region: Phage_portal; pfam04860 394221002446 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 394221002447 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 394221002448 Phage capsid family; Region: Phage_capsid; pfam05065 394221002449 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 394221002450 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 394221002451 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 394221002452 oligomerization interface [polypeptide binding]; other site 394221002453 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 394221002454 Phage major tail protein 2; Region: Phage_tail_2; cl11463 394221002455 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; cl09774 394221002456 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 394221002457 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 394221002458 Uncharacterized conserved protein [Function unknown]; Region: COG5449 394221002459 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 394221002460 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 394221002461 NlpC/P60 family; Region: NLPC_P60; cl11438 394221002462 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 394221002463 Putative phage tail protein; Region: Phage-tail_3; pfam13550 394221002464 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 394221002465 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 394221002466 HSP70 interaction site [polypeptide binding]; other site 394221002467 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 394221002468 substrate binding site [polypeptide binding]; other site 394221002469 dimer interface [polypeptide binding]; other site 394221002470 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 394221002471 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394221002472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221002473 active site 394221002474 phosphorylation site [posttranslational modification] 394221002475 intermolecular recognition site; other site 394221002476 dimerization interface [polypeptide binding]; other site 394221002477 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394221002478 DNA binding site [nucleotide binding] 394221002479 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 394221002480 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 394221002481 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221002482 ATP binding site [chemical binding]; other site 394221002483 Mg2+ binding site [ion binding]; other site 394221002484 G-X-G motif; other site 394221002485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221002486 CcmE; Region: CcmE; cl00994 394221002487 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 394221002488 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221002489 OsmC-like protein; Region: OsmC; cl00767 394221002490 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 394221002491 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 394221002492 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394221002493 protein binding site [polypeptide binding]; other site 394221002494 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394221002495 protein binding site [polypeptide binding]; other site 394221002496 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 394221002497 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221002498 active site 394221002499 phosphorylation site [posttranslational modification] 394221002500 intermolecular recognition site; other site 394221002501 dimerization interface [polypeptide binding]; other site 394221002502 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394221002503 DNA binding site [nucleotide binding] 394221002504 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394221002505 dimerization interface [polypeptide binding]; other site 394221002506 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221002507 dimer interface [polypeptide binding]; other site 394221002508 phosphorylation site [posttranslational modification] 394221002509 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221002510 ATP binding site [chemical binding]; other site 394221002511 Mg2+ binding site [ion binding]; other site 394221002512 G-X-G motif; other site 394221002513 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 394221002514 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 394221002515 metal binding triad; other site 394221002516 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 394221002517 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 394221002518 metal binding triad; other site 394221002519 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 394221002520 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 394221002521 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 394221002522 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394221002523 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394221002524 DNA binding residues [nucleotide binding] 394221002525 PAS fold; Region: PAS; pfam00989 394221002526 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 394221002527 PAS fold; Region: PAS_7; pfam12860 394221002528 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221002529 dimer interface [polypeptide binding]; other site 394221002530 phosphorylation site [posttranslational modification] 394221002531 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221002532 ATP binding site [chemical binding]; other site 394221002533 Mg2+ binding site [ion binding]; other site 394221002534 G-X-G motif; other site 394221002535 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 394221002536 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221002537 active site 394221002538 phosphorylation site [posttranslational modification] 394221002539 intermolecular recognition site; other site 394221002540 dimerization interface [polypeptide binding]; other site 394221002541 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394221002542 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 394221002543 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 394221002544 FMN binding site [chemical binding]; other site 394221002545 active site 394221002546 catalytic residues [active] 394221002547 substrate binding site [chemical binding]; other site 394221002548 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 394221002549 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 394221002550 catalytic motif [active] 394221002551 Catalytic residue [active] 394221002552 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 394221002553 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 394221002554 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 394221002555 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 394221002556 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 394221002557 trimer interface [polypeptide binding]; other site 394221002558 active site 394221002559 substrate binding site [chemical binding]; other site 394221002560 CoA binding site [chemical binding]; other site 394221002561 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 394221002562 CoenzymeA binding site [chemical binding]; other site 394221002563 subunit interaction site [polypeptide binding]; other site 394221002564 PHB binding site; other site 394221002565 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 394221002566 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 394221002567 putative uracil binding site [chemical binding]; other site 394221002568 putative active site [active] 394221002569 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 394221002570 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 394221002571 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 394221002572 NAD binding site [chemical binding]; other site 394221002573 Phe binding site; other site 394221002574 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 394221002575 Mechanosensitive ion channel; Region: MS_channel; pfam00924 394221002576 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394221002577 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 394221002578 Walker A/P-loop; other site 394221002579 ATP binding site [chemical binding]; other site 394221002580 Q-loop/lid; other site 394221002581 ABC transporter signature motif; other site 394221002582 Walker B; other site 394221002583 D-loop; other site 394221002584 H-loop/switch region; other site 394221002585 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 394221002586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 394221002587 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 394221002588 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 394221002589 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394221002590 phosphoglycolate phosphatase; Provisional; Region: PRK13222 394221002591 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394221002592 motif II; other site 394221002593 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 394221002594 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 394221002595 Substrate binding site; other site 394221002596 Mg++ binding site; other site 394221002597 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 394221002598 active site 394221002599 substrate binding site [chemical binding]; other site 394221002600 CoA binding site [chemical binding]; other site 394221002601 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394221002602 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 394221002603 tetramerization interface [polypeptide binding]; other site 394221002604 NAD(P) binding site [chemical binding]; other site 394221002605 catalytic residues [active] 394221002606 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 394221002607 tetramer (dimer of dimers) interface [polypeptide binding]; other site 394221002608 active site 394221002609 dimer interface [polypeptide binding]; other site 394221002610 glutathione reductase; Validated; Region: PRK06116 394221002611 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394221002612 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394221002613 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 394221002614 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 394221002615 IHF - DNA interface [nucleotide binding]; other site 394221002616 IHF dimer interface [polypeptide binding]; other site 394221002617 Response regulator receiver domain; Region: Response_reg; pfam00072 394221002618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221002619 active site 394221002620 phosphorylation site [posttranslational modification] 394221002621 intermolecular recognition site; other site 394221002622 dimerization interface [polypeptide binding]; other site 394221002623 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 394221002624 GAF domain; Region: GAF; cl15785 394221002625 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221002626 dimer interface [polypeptide binding]; other site 394221002627 phosphorylation site [posttranslational modification] 394221002628 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221002629 ATP binding site [chemical binding]; other site 394221002630 Mg2+ binding site [ion binding]; other site 394221002631 G-X-G motif; other site 394221002632 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 394221002633 Prostaglandin dehydrogenases; Region: PGDH; cd05288 394221002634 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 394221002635 NAD(P) binding site [chemical binding]; other site 394221002636 substrate binding site [chemical binding]; other site 394221002637 dimer interface [polypeptide binding]; other site 394221002638 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 394221002639 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394221002640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221002641 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 394221002642 NAD synthetase; Provisional; Region: PRK13981 394221002643 multimer interface [polypeptide binding]; other site 394221002644 active site 394221002645 catalytic triad [active] 394221002646 protein interface 1 [polypeptide binding]; other site 394221002647 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 394221002648 homodimer interface [polypeptide binding]; other site 394221002649 NAD binding pocket [chemical binding]; other site 394221002650 ATP binding pocket [chemical binding]; other site 394221002651 Mg binding site [ion binding]; other site 394221002652 active-site loop [active] 394221002653 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 394221002654 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 394221002655 active site 394221002656 HIGH motif; other site 394221002657 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 394221002658 active site 394221002659 KMSKS motif; other site 394221002660 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394221002661 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221002662 non-specific DNA binding site [nucleotide binding]; other site 394221002663 salt bridge; other site 394221002664 sequence-specific DNA binding site [nucleotide binding]; other site 394221002665 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 394221002666 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 394221002667 putative peptidoglycan binding site; other site 394221002668 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 394221002669 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 394221002670 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221002671 Walker A/P-loop; other site 394221002672 ATP binding site [chemical binding]; other site 394221002673 Q-loop/lid; other site 394221002674 ABC transporter signature motif; other site 394221002675 Walker B; other site 394221002676 D-loop; other site 394221002677 H-loop/switch region; other site 394221002678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221002679 Protein of unknown function (DUF962); Region: DUF962; cl01879 394221002680 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 394221002681 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 394221002682 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 394221002683 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 394221002684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221002685 NAD(P) binding site [chemical binding]; other site 394221002686 active site 394221002687 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 394221002688 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221002689 S-adenosylmethionine binding site [chemical binding]; other site 394221002690 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 394221002691 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 394221002692 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 394221002693 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394221002694 substrate binding pocket [chemical binding]; other site 394221002695 membrane-bound complex binding site; other site 394221002696 hinge residues; other site 394221002697 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 394221002698 N-acetyl-D-glucosamine binding site [chemical binding]; other site 394221002699 catalytic residue [active] 394221002700 recombinase A; Provisional; Region: recA; PRK09354 394221002701 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 394221002702 hexamer interface [polypeptide binding]; other site 394221002703 Walker A motif; other site 394221002704 ATP binding site [chemical binding]; other site 394221002705 Walker B motif; other site 394221002706 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 394221002707 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 394221002708 motif 1; other site 394221002709 active site 394221002710 motif 2; other site 394221002711 motif 3; other site 394221002712 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 394221002713 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 394221002714 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 394221002715 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 394221002716 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 394221002717 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 394221002718 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221002719 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 394221002720 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 394221002721 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 394221002722 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 394221002723 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394221002724 RNA binding surface [nucleotide binding]; other site 394221002725 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 394221002726 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 394221002727 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 394221002728 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 394221002729 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 394221002730 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 394221002731 active site 394221002732 homotetramer interface [polypeptide binding]; other site 394221002733 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 394221002734 putative GSH binding site [chemical binding]; other site 394221002735 catalytic residues [active] 394221002736 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394221002737 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394221002738 active site 394221002739 catalytic tetrad [active] 394221002740 BolA-like protein; Region: BolA; cl00386 394221002741 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 394221002742 M28 Zn-Peptidases; Region: M28_like_2; cd05662 394221002743 metal binding site [ion binding]; metal-binding site 394221002744 Phospholipid methyltransferase; Region: PEMT; cl00763 394221002745 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 394221002746 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 394221002747 dimerization interface [polypeptide binding]; other site 394221002748 ATP binding site [chemical binding]; other site 394221002749 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 394221002750 dimerization interface [polypeptide binding]; other site 394221002751 ATP binding site [chemical binding]; other site 394221002752 YcfA-like protein; Region: YcfA; cl00752 394221002753 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 394221002754 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 394221002755 putative active site [active] 394221002756 catalytic triad [active] 394221002757 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 394221002758 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 394221002759 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 394221002760 ATP binding site [chemical binding]; other site 394221002761 active site 394221002762 substrate binding site [chemical binding]; other site 394221002763 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 394221002764 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 394221002765 catalytic residues [active] 394221002766 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 394221002767 adenylosuccinate lyase; Provisional; Region: PRK07492 394221002768 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 394221002769 tetramer interface [polypeptide binding]; other site 394221002770 active site 394221002771 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 394221002772 putative active site [active] 394221002773 threonine synthase; Validated; Region: PRK08197 394221002774 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 394221002775 homodimer interface [polypeptide binding]; other site 394221002776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221002777 catalytic residue [active] 394221002778 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 394221002779 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 394221002780 active site 394221002781 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 394221002782 active site 394221002783 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221002784 metal binding site [ion binding]; metal-binding site 394221002785 hypothetical protein; Reviewed; Region: PRK00024 394221002786 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 394221002787 MPN+ (JAMM) motif; other site 394221002788 Zinc-binding site [ion binding]; other site 394221002789 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 394221002790 active site 394221002791 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 394221002792 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 394221002793 PA/protease or protease-like domain interface [polypeptide binding]; other site 394221002794 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 394221002795 metal binding site [ion binding]; metal-binding site 394221002796 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 394221002797 active site 394221002798 Sugar fermentation stimulation protein; Region: SfsA; cl00647 394221002799 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 394221002800 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 394221002801 putative MPT binding site; other site 394221002802 von Willebrand factor; Region: vWF_A; pfam12450 394221002803 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 394221002804 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 394221002805 metal ion-dependent adhesion site (MIDAS); other site 394221002806 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 394221002807 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 394221002808 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394221002809 N-terminal plug; other site 394221002810 ligand-binding site [chemical binding]; other site 394221002811 TPR repeat; Region: TPR_11; pfam13414 394221002812 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221002813 TPR motif; other site 394221002814 binding surface 394221002815 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 394221002816 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 394221002817 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 394221002818 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221002819 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 394221002820 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 394221002821 endonuclease III; Region: ENDO3c; smart00478 394221002822 minor groove reading motif; other site 394221002823 helix-hairpin-helix signature motif; other site 394221002824 substrate binding pocket [chemical binding]; other site 394221002825 active site 394221002826 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 394221002827 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 394221002828 FMN binding site [chemical binding]; other site 394221002829 substrate binding site [chemical binding]; other site 394221002830 putative catalytic residue [active] 394221002831 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 394221002832 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 394221002833 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394221002834 motif II; other site 394221002835 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 394221002836 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 394221002837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221002838 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394221002839 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221002840 putative DNA binding site [nucleotide binding]; other site 394221002841 putative Zn2+ binding site [ion binding]; other site 394221002842 Helix-turn-helix domains; Region: HTH; cl00088 394221002843 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 394221002844 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 394221002845 putative FMN binding site [chemical binding]; other site 394221002846 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394221002847 Helix-turn-helix domains; Region: HTH; cl00088 394221002848 WHG domain; Region: WHG; pfam13305 394221002849 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394221002850 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221002851 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394221002852 Protein export membrane protein; Region: SecD_SecF; cl14618 394221002853 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 394221002854 ADP-ribose binding site [chemical binding]; other site 394221002855 dimer interface [polypeptide binding]; other site 394221002856 active site 394221002857 nudix motif; other site 394221002858 metal binding site [ion binding]; metal-binding site 394221002859 serine acetyltransferase; Provisional; Region: cysE; PRK11132 394221002860 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 394221002861 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 394221002862 trimer interface [polypeptide binding]; other site 394221002863 active site 394221002864 substrate binding site [chemical binding]; other site 394221002865 CoA binding site [chemical binding]; other site 394221002866 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 394221002867 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394221002868 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221002869 Walker A/P-loop; other site 394221002870 ATP binding site [chemical binding]; other site 394221002871 Q-loop/lid; other site 394221002872 ABC transporter signature motif; other site 394221002873 Walker B; other site 394221002874 D-loop; other site 394221002875 H-loop/switch region; other site 394221002876 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394221002877 dimer interface [polypeptide binding]; other site 394221002878 conserved gate region; other site 394221002879 putative PBP binding loops; other site 394221002880 ABC-ATPase subunit interface; other site 394221002881 NMT1-like family; Region: NMT1_2; cl15260 394221002882 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 394221002883 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221002884 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 394221002885 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 394221002886 trimer interface [polypeptide binding]; other site 394221002887 putative metal binding site [ion binding]; other site 394221002888 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 394221002889 PilZ domain; Region: PilZ; cl01260 394221002890 PilZ domain; Region: PilZ; cl01260 394221002891 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 394221002892 PAS domain; Region: PAS_5; pfam07310 394221002893 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 394221002894 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221002895 dimerization interface [polypeptide binding]; other site 394221002896 putative DNA binding site [nucleotide binding]; other site 394221002897 putative Zn2+ binding site [ion binding]; other site 394221002898 TolB amino-terminal domain; Region: TolB_N; cl00639 394221002899 Rhomboid family; Region: Rhomboid; cl11446 394221002900 GDYXXLXY protein; Region: GDYXXLXY; cl02066 394221002901 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 394221002902 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 394221002903 FOG: CBS domain [General function prediction only]; Region: COG0517 394221002904 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 394221002905 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 394221002906 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 394221002907 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 394221002908 DNA binding residues [nucleotide binding] 394221002909 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 394221002910 dimer interface [polypeptide binding]; other site 394221002911 putative metal binding site [ion binding]; other site 394221002912 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 394221002913 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 394221002914 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221002915 catalytic residue [active] 394221002916 homoserine kinase; Provisional; Region: PRK01212 394221002917 AAK_AK: Amino Acid Kinase Superfamily (AAK), Aspartokinase (AK); this CD includes the N-terminal catalytic domain of aspartokinase (4-L-aspartate-4-phosphotransferase;). AK is the first enzyme in the biosynthetic pathway of the aspartate family of amino...; Region: AAK_AK; cd04234 394221002918 putative catalytic residues [active] 394221002919 putative nucleotide binding site [chemical binding]; other site 394221002920 aspartate binding site [chemical binding]; other site 394221002921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221002922 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 394221002923 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 394221002924 active site 394221002925 substrate-binding site [chemical binding]; other site 394221002926 metal-binding site [ion binding] 394221002927 ATP binding site [chemical binding]; other site 394221002928 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 394221002929 Cupin domain; Region: Cupin_2; cl09118 394221002930 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 394221002931 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 394221002932 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 394221002933 PA/protease or protease-like domain interface [polypeptide binding]; other site 394221002934 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 394221002935 metal binding site [ion binding]; metal-binding site 394221002936 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 394221002937 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 394221002938 DXD motif; other site 394221002939 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 394221002940 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394221002941 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 394221002942 putative C-terminal domain interface [polypeptide binding]; other site 394221002943 putative GSH binding site (G-site) [chemical binding]; other site 394221002944 putative dimer interface [polypeptide binding]; other site 394221002945 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 394221002946 putative N-terminal domain interface [polypeptide binding]; other site 394221002947 putative dimer interface [polypeptide binding]; other site 394221002948 putative substrate binding pocket (H-site) [chemical binding]; other site 394221002949 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 394221002950 Amidase; Region: Amidase; cl11426 394221002951 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394221002952 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 394221002953 putative C-terminal domain interface [polypeptide binding]; other site 394221002954 putative GSH binding site (G-site) [chemical binding]; other site 394221002955 putative dimer interface [polypeptide binding]; other site 394221002956 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 394221002957 N-terminal domain interface [polypeptide binding]; other site 394221002958 dimer interface [polypeptide binding]; other site 394221002959 substrate binding pocket (H-site) [chemical binding]; other site 394221002960 Predicted amidohydrolase [General function prediction only]; Region: COG0388 394221002961 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 394221002962 putative active site [active] 394221002963 catalytic triad [active] 394221002964 putative dimer interface [polypeptide binding]; other site 394221002965 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 394221002966 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221002967 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 394221002968 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221002969 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221002970 Uncharacterized conserved protein [Function unknown]; Region: COG3743 394221002971 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 394221002972 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 394221002973 active site 394221002974 substrate binding site [chemical binding]; other site 394221002975 coenzyme B12 binding site [chemical binding]; other site 394221002976 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 394221002977 B12 binding site [chemical binding]; other site 394221002978 cobalt ligand [ion binding]; other site 394221002979 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 394221002980 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 394221002981 heterodimer interface [polypeptide binding]; other site 394221002982 substrate interaction site [chemical binding]; other site 394221002983 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 394221002984 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 394221002985 Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of...; Region: HX; cl02471 394221002986 Metal binding sites [ion binding]; metal-binding site 394221002987 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 394221002988 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 394221002989 hinge; other site 394221002990 active site 394221002991 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 394221002992 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 394221002993 Low molecular weight phosphatase family; Region: LMWPc; cl00105 394221002994 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 394221002995 active site 394221002996 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 394221002997 rRNA binding site [nucleotide binding]; other site 394221002998 predicted 30S ribosome binding site; other site 394221002999 Maf-like protein; Region: Maf; pfam02545 394221003000 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 394221003001 active site 394221003002 dimer interface [polypeptide binding]; other site 394221003003 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 394221003004 homodimer interface [polypeptide binding]; other site 394221003005 oligonucleotide binding site [chemical binding]; other site 394221003006 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 394221003007 Domain of unknown function (DUF329); Region: DUF329; cl01144 394221003008 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 394221003009 putative active site [active] 394221003010 putative FMN binding site [chemical binding]; other site 394221003011 putative substrate binding site [chemical binding]; other site 394221003012 putative catalytic residue [active] 394221003013 cyanophycin synthetase; Provisional; Region: PRK14016 394221003014 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221003015 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 394221003016 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 394221003017 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 394221003018 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221003019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221003020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221003021 NAD(P) binding site [chemical binding]; other site 394221003022 active site 394221003023 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394221003024 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221003025 pyruvate carboxylase; Reviewed; Region: PRK12999 394221003026 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394221003027 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221003028 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 394221003029 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 394221003030 active site 394221003031 catalytic residues [active] 394221003032 metal binding site [ion binding]; metal-binding site 394221003033 homodimer binding site [polypeptide binding]; other site 394221003034 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 394221003035 carboxyltransferase (CT) interaction site; other site 394221003036 biotinylation site [posttranslational modification]; other site 394221003037 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221003038 dimerization interface [polypeptide binding]; other site 394221003039 putative DNA binding site [nucleotide binding]; other site 394221003040 putative Zn2+ binding site [ion binding]; other site 394221003041 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 394221003042 hydrophobic ligand binding site; other site 394221003043 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 394221003044 threonine dehydratase; Provisional; Region: PRK07334 394221003045 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 394221003046 tetramer interface [polypeptide binding]; other site 394221003047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221003048 catalytic residue [active] 394221003049 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 394221003050 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 394221003051 active site 394221003052 intersubunit interactions; other site 394221003053 catalytic residue [active] 394221003054 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 394221003055 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 394221003056 Low-spin heme binding site [chemical binding]; other site 394221003057 Putative water exit pathway; other site 394221003058 Binuclear center (active site) [active] 394221003059 Putative proton exit pathway; other site 394221003060 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 394221003061 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 394221003062 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 394221003063 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 394221003064 Cytochrome c; Region: Cytochrom_C; cl11414 394221003065 Cytochrome c; Region: Cytochrom_C; cl11414 394221003066 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 394221003067 4Fe-4S binding domain; Region: Fer4_5; pfam12801 394221003068 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 394221003069 FixH; Region: FixH; cl01254 394221003070 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 394221003071 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 394221003072 metal-binding site [ion binding] 394221003073 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 394221003074 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 394221003075 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 394221003076 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 394221003077 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 394221003078 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 394221003079 MG2 domain; Region: A2M_N; pfam01835 394221003080 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 394221003081 Alpha-2-macroglobulin family; Region: A2M; pfam00207 394221003082 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 394221003083 surface patch; other site 394221003084 thioester region; other site 394221003085 specificity defining residues; other site 394221003086 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 394221003087 Transglycosylase; Region: Transgly; cl07896 394221003088 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221003089 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 394221003090 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 394221003091 active site 394221003092 dimer interface [polypeptide binding]; other site 394221003093 catalytic nucleophile [active] 394221003094 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394221003095 Helix-turn-helix domains; Region: HTH; cl00088 394221003096 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394221003097 dimerization interface [polypeptide binding]; other site 394221003098 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 394221003099 active site clefts [active] 394221003100 zinc binding site [ion binding]; other site 394221003101 dimer interface [polypeptide binding]; other site 394221003102 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 394221003103 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 394221003104 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 394221003105 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 394221003106 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 394221003107 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 394221003108 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 394221003109 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 394221003110 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 394221003111 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 394221003112 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 394221003113 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 394221003114 active site 394221003115 MAPEG family; Region: MAPEG; cl09190 394221003116 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 394221003117 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 394221003118 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 394221003119 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 394221003120 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 394221003121 OpgC protein; Region: OpgC_C; cl00792 394221003122 Acyltransferase family; Region: Acyl_transf_3; pfam01757 394221003123 YceI-like domain; Region: YceI; cl01001 394221003124 GMP synthase; Reviewed; Region: guaA; PRK00074 394221003125 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 394221003126 AMP/PPi binding site [chemical binding]; other site 394221003127 candidate oxyanion hole; other site 394221003128 catalytic triad [active] 394221003129 potential glutamine specificity residues [chemical binding]; other site 394221003130 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 394221003131 ATP Binding subdomain [chemical binding]; other site 394221003132 Ligand Binding sites [chemical binding]; other site 394221003133 Dimerization subdomain; other site 394221003134 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 394221003135 DNA-binding site [nucleotide binding]; DNA binding site 394221003136 RNA-binding motif; other site 394221003137 Helix-turn-helix domains; Region: HTH; cl00088 394221003138 LysR family transcriptional regulator; Provisional; Region: PRK14997 394221003139 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 394221003140 putative effector binding pocket; other site 394221003141 putative dimerization interface [polypeptide binding]; other site 394221003142 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 394221003143 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 394221003144 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 394221003145 SlyX; Region: SlyX; cl01090 394221003146 LytTr DNA-binding domain; Region: LytTR; cl04498 394221003147 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394221003148 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221003149 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 394221003150 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394221003151 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 394221003152 Phospholipid methyltransferase; Region: PEMT; cl00763 394221003153 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 394221003154 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394221003155 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394221003156 DNA binding residues [nucleotide binding] 394221003157 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 394221003158 oligomerization interface [polypeptide binding]; other site 394221003159 active site 394221003160 metal binding site [ion binding]; metal-binding site 394221003161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 394221003162 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 394221003163 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 394221003164 Trp docking motif [polypeptide binding]; other site 394221003165 active site 394221003166 PQQ-like domain; Region: PQQ_2; pfam13360 394221003167 GTP-binding protein Der; Reviewed; Region: PRK00093 394221003168 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 394221003169 G1 box; other site 394221003170 GTP/Mg2+ binding site [chemical binding]; other site 394221003171 Switch I region; other site 394221003172 G2 box; other site 394221003173 Switch II region; other site 394221003174 G3 box; other site 394221003175 G4 box; other site 394221003176 G5 box; other site 394221003177 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 394221003178 G1 box; other site 394221003179 GTP/Mg2+ binding site [chemical binding]; other site 394221003180 Switch I region; other site 394221003181 G2 box; other site 394221003182 G3 box; other site 394221003183 Switch II region; other site 394221003184 G4 box; other site 394221003185 G5 box; other site 394221003186 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 394221003187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221003188 NAD(P) binding site [chemical binding]; other site 394221003189 active site 394221003190 amidophosphoribosyltransferase; Provisional; Region: PRK09123 394221003191 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 394221003192 active site 394221003193 tetramer interface [polypeptide binding]; other site 394221003194 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394221003195 active site 394221003196 Colicin V production protein; Region: Colicin_V; cl00567 394221003197 DNA repair protein RadA; Provisional; Region: PRK11823 394221003198 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 394221003199 Walker A motif/ATP binding site; other site 394221003200 ATP binding site [chemical binding]; other site 394221003201 Walker B motif; other site 394221003202 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 394221003203 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 394221003204 active site 394221003205 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394221003206 dimer interface [polypeptide binding]; other site 394221003207 substrate binding site [chemical binding]; other site 394221003208 catalytic residues [active] 394221003209 replicative DNA helicase; Provisional; Region: PRK09165 394221003210 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 394221003211 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 394221003212 Walker A motif; other site 394221003213 ATP binding site [chemical binding]; other site 394221003214 Walker B motif; other site 394221003215 DNA binding loops [nucleotide binding] 394221003216 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 394221003217 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 394221003218 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 394221003219 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 394221003220 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 394221003221 Acyl transferase domain; Region: Acyl_transf_1; cl08282 394221003222 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 394221003223 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 394221003224 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 394221003225 NAD(P) binding site [chemical binding]; other site 394221003226 homotetramer interface [polypeptide binding]; other site 394221003227 homodimer interface [polypeptide binding]; other site 394221003228 active site 394221003229 Phosphopantetheine attachment site; Region: PP-binding; cl09936 394221003230 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 394221003231 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 394221003232 dimer interface [polypeptide binding]; other site 394221003233 active site 394221003234 YceG-like family; Region: YceG; pfam02618 394221003235 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 394221003236 dimerization interface [polypeptide binding]; other site 394221003237 hypothetical protein; Provisional; Region: PRK11820 394221003238 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 394221003239 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 394221003240 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 394221003241 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 394221003242 catalytic site [active] 394221003243 G-X2-G-X-G-K; other site 394221003244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221003245 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 394221003246 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 394221003247 SurA N-terminal domain; Region: SurA_N_3; cl07813 394221003248 PPIC-type PPIASE domain; Region: Rotamase; cl08278 394221003249 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 394221003250 Organic solvent tolerance protein; Region: OstA_C; pfam04453 394221003251 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 394221003252 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 394221003253 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 394221003254 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 394221003255 multifunctional aminopeptidase A; Provisional; Region: PRK00913 394221003256 interface (dimer of trimers) [polypeptide binding]; other site 394221003257 Substrate-binding/catalytic site; other site 394221003258 Zn-binding sites [ion binding]; other site 394221003259 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 394221003260 Potato inhibitor I family; Region: potato_inhibit; cl15459 394221003261 Potato inhibitor I family; Region: potato_inhibit; cl15459 394221003262 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 394221003263 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 394221003264 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 394221003265 ABC transporter; Region: ABC_tran_2; pfam12848 394221003266 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 394221003267 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 394221003268 Methyltransferase domain; Region: Methyltransf_31; pfam13847 394221003269 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221003270 S-adenosylmethionine binding site [chemical binding]; other site 394221003271 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 394221003272 active site 394221003273 multimer interface [polypeptide binding]; other site 394221003274 LysE type translocator; Region: LysE; cl00565 394221003275 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 394221003276 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 394221003277 active site 394221003278 purine riboside binding site [chemical binding]; other site 394221003279 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003280 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 394221003281 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003282 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003283 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003284 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 394221003285 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003286 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003287 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003288 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003289 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 394221003290 Active site serine [active] 394221003291 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394221003292 DNA binding site [nucleotide binding] 394221003293 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221003294 TPR motif; other site 394221003295 binding surface 394221003296 RF-1 domain; Region: RF-1; cl02875 394221003297 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 394221003298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221003299 NmrA-like family; Region: NmrA; pfam05368 394221003300 NAD(P) binding site [chemical binding]; other site 394221003301 active site 394221003302 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394221003303 Helix-turn-helix domains; Region: HTH; cl00088 394221003304 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 394221003305 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 394221003306 active site 394221003307 substrate binding site [chemical binding]; other site 394221003308 cosubstrate binding site; other site 394221003309 catalytic site [active] 394221003310 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 394221003311 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 394221003312 dimerization interface [polypeptide binding]; other site 394221003313 putative ATP binding site [chemical binding]; other site 394221003314 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 394221003315 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221003316 polyphosphate kinase; Provisional; Region: PRK05443 394221003317 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 394221003318 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 394221003319 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 394221003320 putative domain interface [polypeptide binding]; other site 394221003321 putative active site [active] 394221003322 catalytic site [active] 394221003323 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 394221003324 putative domain interface [polypeptide binding]; other site 394221003325 putative active site [active] 394221003326 catalytic site [active] 394221003327 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 394221003328 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 394221003329 ribonuclease D; Region: rnd; TIGR01388 394221003330 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 394221003331 putative active site [active] 394221003332 catalytic site [active] 394221003333 putative substrate binding site [chemical binding]; other site 394221003334 HRDC domain; Region: HRDC; cl02578 394221003335 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 394221003336 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 394221003337 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221003338 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 394221003339 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 394221003340 putative acyl-acceptor binding pocket; other site 394221003341 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 394221003342 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 394221003343 putative acyl-acceptor binding pocket; other site 394221003344 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394221003345 Helix-turn-helix domains; Region: HTH; cl00088 394221003346 flagellin; Reviewed; Region: PRK12687 394221003347 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 394221003348 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 394221003349 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 394221003350 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 394221003351 dimer interface [polypeptide binding]; other site 394221003352 anticodon binding site; other site 394221003353 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 394221003354 homodimer interface [polypeptide binding]; other site 394221003355 motif 1; other site 394221003356 active site 394221003357 motif 2; other site 394221003358 GAD domain; Region: GAD; pfam02938 394221003359 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 394221003360 active site 394221003361 motif 3; other site 394221003362 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 394221003363 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003364 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 394221003365 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003366 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003367 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003368 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003369 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 394221003370 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003371 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221003372 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 394221003373 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 394221003374 TSCPD domain; Region: TSCPD; cl14834 394221003375 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 394221003376 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 394221003377 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221003378 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 394221003379 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394221003380 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221003381 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 394221003382 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 394221003383 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 394221003384 carboxyltransferase (CT) interaction site; other site 394221003385 biotinylation site [posttranslational modification]; other site 394221003386 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 394221003387 trimer interface [polypeptide binding]; other site 394221003388 active site 394221003389 dimer interface [polypeptide binding]; other site 394221003390 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 394221003391 thiS-thiF/thiG interaction site; other site 394221003392 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 394221003393 ThiS interaction site; other site 394221003394 putative active site [active] 394221003395 tetramer interface [polypeptide binding]; other site 394221003396 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 394221003397 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 394221003398 catalytic residues [active] 394221003399 Cupin domain; Region: Cupin_2; cl09118 394221003400 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 394221003401 homotrimer interaction site [polypeptide binding]; other site 394221003402 putative active site [active] 394221003403 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 394221003404 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221003405 DNA polymerase IV; Provisional; Region: PRK02794 394221003406 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 394221003407 active site 394221003408 DNA binding site [nucleotide binding] 394221003409 fructokinase; Reviewed; Region: PRK09557 394221003410 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 394221003411 Response regulator receiver domain; Region: Response_reg; pfam00072 394221003412 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221003413 active site 394221003414 phosphorylation site [posttranslational modification] 394221003415 intermolecular recognition site; other site 394221003416 dimerization interface [polypeptide binding]; other site 394221003417 response regulator PleD; Reviewed; Region: pleD; PRK09581 394221003418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221003419 active site 394221003420 phosphorylation site [posttranslational modification] 394221003421 intermolecular recognition site; other site 394221003422 dimerization interface [polypeptide binding]; other site 394221003423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221003424 active site 394221003425 phosphorylation site [posttranslational modification] 394221003426 intermolecular recognition site; other site 394221003427 dimerization interface [polypeptide binding]; other site 394221003428 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394221003429 metal binding site [ion binding]; metal-binding site 394221003430 active site 394221003431 I-site; other site 394221003432 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 394221003433 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221003434 putative substrate translocation pore; other site 394221003435 ribonuclease R; Region: RNase_R; TIGR02063 394221003436 RNB domain; Region: RNB; pfam00773 394221003437 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 394221003438 RNA binding site [nucleotide binding]; other site 394221003439 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 394221003440 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 394221003441 active site 394221003442 interdomain interaction site; other site 394221003443 putative metal-binding site [ion binding]; other site 394221003444 nucleotide binding site [chemical binding]; other site 394221003445 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 394221003446 domain I; other site 394221003447 DNA binding groove [nucleotide binding] 394221003448 phosphate binding site [ion binding]; other site 394221003449 domain II; other site 394221003450 domain III; other site 394221003451 nucleotide binding site [chemical binding]; other site 394221003452 catalytic site [active] 394221003453 domain IV; other site 394221003454 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 394221003455 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 394221003456 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 394221003457 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 394221003458 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 394221003459 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221003460 Sporulation related domain; Region: SPOR; cl10051 394221003461 Phasin protein; Region: Phasin_2; cl11491 394221003462 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 394221003463 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 394221003464 Clp amino terminal domain; Region: Clp_N; pfam02861 394221003465 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221003466 Walker A motif; other site 394221003467 ATP binding site [chemical binding]; other site 394221003468 Walker B motif; other site 394221003469 arginine finger; other site 394221003470 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221003471 Walker A motif; other site 394221003472 ATP binding site [chemical binding]; other site 394221003473 Walker B motif; other site 394221003474 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 394221003475 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394221003476 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394221003477 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 394221003478 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221003479 non-specific DNA binding site [nucleotide binding]; other site 394221003480 salt bridge; other site 394221003481 sequence-specific DNA binding site [nucleotide binding]; other site 394221003482 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 394221003483 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394221003484 ATP binding site [chemical binding]; other site 394221003485 putative Mg++ binding site [ion binding]; other site 394221003486 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394221003487 nucleotide binding region [chemical binding]; other site 394221003488 ATP-binding site [chemical binding]; other site 394221003489 RQC domain; Region: RQC; cl09632 394221003490 HRDC domain; Region: HRDC; cl02578 394221003491 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 394221003492 HIT family signature motif; other site 394221003493 catalytic residue [active] 394221003494 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221003495 Protein of unknown function, DUF482; Region: DUF482; pfam04339 394221003496 Peptidase family M48; Region: Peptidase_M48; cl12018 394221003497 TPR repeat; Region: TPR_11; pfam13414 394221003498 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221003499 TPR motif; other site 394221003500 binding surface 394221003501 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 394221003502 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 394221003503 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 394221003504 AMIN domain; Region: AMIN; pfam11741 394221003505 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 394221003506 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 394221003507 active site 394221003508 metal binding site [ion binding]; metal-binding site 394221003509 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 394221003510 Transglycosylase; Region: Transgly; cl07896 394221003511 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221003512 peptide chain release factor 2; Provisional; Region: PRK07342 394221003513 RF-1 domain; Region: RF-1; cl02875 394221003514 RF-1 domain; Region: RF-1; cl02875 394221003515 Helix-turn-helix domains; Region: HTH; cl00088 394221003516 OpgC protein; Region: OpgC_C; cl00792 394221003517 Acyltransferase family; Region: Acyl_transf_3; pfam01757 394221003518 OpgC protein; Region: OpgC_C; cl00792 394221003519 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 394221003520 Peptidase family M23; Region: Peptidase_M23; pfam01551 394221003521 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 394221003522 dinuclear metal binding motif [ion binding]; other site 394221003523 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 394221003524 catalytic triad [active] 394221003525 Protein of unknown function; Region: DUF3971; pfam13116 394221003526 AsmA-like C-terminal region; Region: AsmA_2; cl15864 394221003527 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 394221003528 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 394221003529 active site 394221003530 HIGH motif; other site 394221003531 dimer interface [polypeptide binding]; other site 394221003532 KMSKS motif; other site 394221003533 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394221003534 RNA binding surface [nucleotide binding]; other site 394221003535 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 394221003536 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 394221003537 Eukaryotic protein of unknown function (DUF829); Region: DUF829; pfam05705 394221003538 Helix-turn-helix domains; Region: HTH; cl00088 394221003539 Rrf2 family protein; Region: rrf2_super; TIGR00738 394221003540 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394221003541 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 394221003542 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221003543 catalytic residue [active] 394221003544 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 394221003545 putative ABC transporter; Region: ycf24; CHL00085 394221003546 Cupin domain; Region: Cupin_2; cl09118 394221003547 FeS assembly ATPase SufC; Region: sufC; TIGR01978 394221003548 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 394221003549 Walker A/P-loop; other site 394221003550 ATP binding site [chemical binding]; other site 394221003551 Q-loop/lid; other site 394221003552 ABC transporter signature motif; other site 394221003553 Walker B; other site 394221003554 D-loop; other site 394221003555 H-loop/switch region; other site 394221003556 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 394221003557 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 394221003558 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 394221003559 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221003560 catalytic residue [active] 394221003561 Domain of unknown function DUF59; Region: DUF59; cl00941 394221003562 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 394221003563 putative glutathione S-transferase; Provisional; Region: PRK10357 394221003564 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 394221003565 putative C-terminal domain interface [polypeptide binding]; other site 394221003566 putative GSH binding site (G-site) [chemical binding]; other site 394221003567 putative dimer interface [polypeptide binding]; other site 394221003568 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 394221003569 dimer interface [polypeptide binding]; other site 394221003570 N-terminal domain interface [polypeptide binding]; other site 394221003571 putative substrate binding pocket (H-site) [chemical binding]; other site 394221003572 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394221003573 metal binding site [ion binding]; metal-binding site 394221003574 active site 394221003575 I-site; other site 394221003576 helicase 45; Provisional; Region: PTZ00424 394221003577 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 394221003578 ATP binding site [chemical binding]; other site 394221003579 Mg++ binding site [ion binding]; other site 394221003580 motif III; other site 394221003581 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394221003582 nucleotide binding region [chemical binding]; other site 394221003583 ATP-binding site [chemical binding]; other site 394221003584 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 394221003585 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221003586 active site 394221003587 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 394221003588 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 394221003589 active site 394221003590 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 394221003591 putative active site [active] 394221003592 Zn binding site [ion binding]; other site 394221003593 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 394221003594 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221003595 ATP binding site [chemical binding]; other site 394221003596 Mg2+ binding site [ion binding]; other site 394221003597 G-X-G motif; other site 394221003598 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 394221003599 anchoring element; other site 394221003600 dimer interface [polypeptide binding]; other site 394221003601 ATP binding site [chemical binding]; other site 394221003602 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 394221003603 active site 394221003604 putative metal-binding site [ion binding]; other site 394221003605 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 394221003606 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 394221003607 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 394221003608 glutamine synthetase; Provisional; Region: glnA; PRK09469 394221003609 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 394221003610 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 394221003611 Nitrogen regulatory protein P-II; Region: P-II; cl00412 394221003612 Nitrogen regulatory protein P-II; Region: P-II; smart00938 394221003613 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 394221003614 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 394221003615 putative substrate binding site [chemical binding]; other site 394221003616 putative ATP binding site [chemical binding]; other site 394221003617 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 394221003618 Malic enzyme, N-terminal domain; Region: malic; pfam00390 394221003619 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 394221003620 putative NAD(P) binding site [chemical binding]; other site 394221003621 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 394221003622 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 394221003623 MatE; Region: MatE; cl10513 394221003624 MatE; Region: MatE; cl10513 394221003625 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221003626 S-adenosylmethionine binding site [chemical binding]; other site 394221003627 trigger factor; Provisional; Region: tig; PRK01490 394221003628 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 394221003629 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 394221003630 Clp protease; Region: CLP_protease; pfam00574 394221003631 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 394221003632 oligomer interface [polypeptide binding]; other site 394221003633 active site residues [active] 394221003634 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 394221003635 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 394221003636 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221003637 Walker A motif; other site 394221003638 ATP binding site [chemical binding]; other site 394221003639 Walker B motif; other site 394221003640 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 394221003641 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 394221003642 Found in ATP-dependent protease La (LON); Region: LON; smart00464 394221003643 Found in ATP-dependent protease La (LON); Region: LON; smart00464 394221003644 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221003645 Walker A motif; other site 394221003646 ATP binding site [chemical binding]; other site 394221003647 Walker B motif; other site 394221003648 arginine finger; other site 394221003649 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 394221003650 Chorismate mutase type II; Region: CM_2; cl00693 394221003651 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 394221003652 Prephenate dehydratase; Region: PDT; pfam00800 394221003653 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 394221003654 putative L-Phe binding site [chemical binding]; other site 394221003655 yiaA/B two helix domain; Region: YiaAB; cl01759 394221003656 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 394221003657 Helix-turn-helix domains; Region: HTH; cl00088 394221003658 WHG domain; Region: WHG; pfam13305 394221003659 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221003660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221003661 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 394221003662 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394221003663 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221003664 catalytic residue [active] 394221003665 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 394221003666 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394221003667 inhibitor-cofactor binding pocket; inhibition site 394221003668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221003669 catalytic residue [active] 394221003670 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221003671 putative DNA binding site [nucleotide binding]; other site 394221003672 putative Zn2+ binding site [ion binding]; other site 394221003673 Helix-turn-helix domains; Region: HTH; cl00088 394221003674 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 394221003675 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221003676 putative metal binding site [ion binding]; other site 394221003677 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 394221003678 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 394221003679 helicase 45; Provisional; Region: PTZ00424 394221003680 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 394221003681 ATP binding site [chemical binding]; other site 394221003682 Mg++ binding site [ion binding]; other site 394221003683 motif III; other site 394221003684 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394221003685 nucleotide binding region [chemical binding]; other site 394221003686 ATP-binding site [chemical binding]; other site 394221003687 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 394221003688 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 394221003689 Protein of unknown function, DUF599; Region: DUF599; cl01575 394221003690 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 394221003691 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 394221003692 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 394221003693 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 394221003694 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 394221003695 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 394221003696 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 394221003697 putative dimer interface [polypeptide binding]; other site 394221003698 [2Fe-2S] cluster binding site [ion binding]; other site 394221003699 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 394221003700 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 394221003701 SLBB domain; Region: SLBB; pfam10531 394221003702 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 394221003703 NADH dehydrogenase subunit G; Validated; Region: PRK09130 394221003704 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394221003705 catalytic loop [active] 394221003706 iron binding site [ion binding]; other site 394221003707 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 394221003708 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 394221003709 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 394221003710 NADH dehydrogenase; Region: NADHdh; cl00469 394221003711 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 394221003712 4Fe-4S binding domain; Region: Fer4; cl02805 394221003713 4Fe-4S binding domain; Region: Fer4; cl02805 394221003714 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 394221003715 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 394221003716 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 394221003717 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 394221003718 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 394221003719 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 394221003720 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 394221003721 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 394221003722 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 394221003723 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 394221003724 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 394221003725 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 394221003726 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 394221003727 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 394221003728 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 394221003729 Type III pantothenate kinase; Region: Pan_kinase; cl09130 394221003730 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 394221003731 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 394221003732 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 394221003733 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221003734 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 394221003735 dimer interface [polypeptide binding]; other site 394221003736 substrate binding site [chemical binding]; other site 394221003737 metal binding site [ion binding]; metal-binding site 394221003738 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 394221003739 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 394221003740 prolyl-tRNA synthetase; Provisional; Region: PRK12325 394221003741 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 394221003742 dimer interface [polypeptide binding]; other site 394221003743 motif 1; other site 394221003744 active site 394221003745 motif 2; other site 394221003746 motif 3; other site 394221003747 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 394221003748 anticodon binding site; other site 394221003749 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 394221003750 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 394221003751 FtsX-like permease family; Region: FtsX; cl15850 394221003752 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 394221003753 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 394221003754 Walker A/P-loop; other site 394221003755 ATP binding site [chemical binding]; other site 394221003756 Q-loop/lid; other site 394221003757 ABC transporter signature motif; other site 394221003758 Walker B; other site 394221003759 D-loop; other site 394221003760 H-loop/switch region; other site 394221003761 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 394221003762 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 394221003763 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 394221003764 generic binding surface II; other site 394221003765 generic binding surface I; other site 394221003766 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 394221003767 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 394221003768 rRNA interaction site [nucleotide binding]; other site 394221003769 S8 interaction site; other site 394221003770 putative laminin-1 binding site; other site 394221003771 elongation factor Ts; Provisional; Region: tsf; PRK09377 394221003772 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 394221003773 Elongation factor TS; Region: EF_TS; pfam00889 394221003774 Elongation factor TS; Region: EF_TS; pfam00889 394221003775 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 394221003776 putative nucleotide binding site [chemical binding]; other site 394221003777 uridine monophosphate binding site [chemical binding]; other site 394221003778 homohexameric interface [polypeptide binding]; other site 394221003779 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 394221003780 ribosome recycling factor; Reviewed; Region: frr; PRK00083 394221003781 hinge region; other site 394221003782 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 394221003783 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 394221003784 catalytic residue [active] 394221003785 putative FPP diphosphate binding site; other site 394221003786 putative FPP binding hydrophobic cleft; other site 394221003787 dimer interface [polypeptide binding]; other site 394221003788 putative IPP diphosphate binding site; other site 394221003789 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 394221003790 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 394221003791 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 394221003792 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 394221003793 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 394221003794 RIP metalloprotease RseP; Region: TIGR00054 394221003795 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 394221003796 active site 394221003797 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 394221003798 protein binding site [polypeptide binding]; other site 394221003799 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 394221003800 protein binding site [polypeptide binding]; other site 394221003801 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 394221003802 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 394221003803 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 394221003804 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 394221003805 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 394221003806 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 394221003807 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 394221003808 Surface antigen; Region: Bac_surface_Ag; cl03097 394221003809 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 394221003810 periplasmic chaperone; Provisional; Region: PRK10780 394221003811 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 394221003812 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 394221003813 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 394221003814 trimer interface [polypeptide binding]; other site 394221003815 active site 394221003816 UDP-GlcNAc binding site [chemical binding]; other site 394221003817 lipid binding site [chemical binding]; lipid-binding site 394221003818 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 394221003819 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 394221003820 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 394221003821 active site 394221003822 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 394221003823 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 394221003824 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 394221003825 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 394221003826 dimer interface [polypeptide binding]; other site 394221003827 Citrate synthase; Region: Citrate_synt; pfam00285 394221003828 active site 394221003829 citrylCoA binding site [chemical binding]; other site 394221003830 NADH binding [chemical binding]; other site 394221003831 cationic pore residues; other site 394221003832 oxalacetate/citrate binding site [chemical binding]; other site 394221003833 coenzyme A binding site [chemical binding]; other site 394221003834 catalytic triad [active] 394221003835 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 394221003836 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 394221003837 active site 394221003838 HIGH motif; other site 394221003839 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 394221003840 active site 394221003841 KMSKS motif; other site 394221003842 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 394221003843 Competence protein; Region: Competence; cl00471 394221003844 LexA repressor; Validated; Region: PRK00215 394221003845 Helix-turn-helix domains; Region: HTH; cl00088 394221003846 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 394221003847 Catalytic site [active] 394221003848 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 394221003849 active site 394221003850 ribulose/triose binding site [chemical binding]; other site 394221003851 phosphate binding site [ion binding]; other site 394221003852 substrate (anthranilate) binding pocket [chemical binding]; other site 394221003853 product (indole) binding pocket [chemical binding]; other site 394221003854 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 394221003855 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 394221003856 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 394221003857 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 394221003858 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 394221003859 glutamine binding [chemical binding]; other site 394221003860 catalytic triad [active] 394221003861 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 394221003862 NodB motif; other site 394221003863 putative active site [active] 394221003864 Zn binding site [ion binding]; other site 394221003865 putative catalytic site [active] 394221003866 anthranilate synthase component I; Provisional; Region: PRK13573 394221003867 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 394221003868 chorismate binding enzyme; Region: Chorismate_bind; cl10555 394221003869 SurA N-terminal domain; Region: SurA_N_3; cl07813 394221003870 PPIC-type PPIASE domain; Region: Rotamase; cl08278 394221003871 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 394221003872 substrate binding site [chemical binding]; other site 394221003873 dimer interface [polypeptide binding]; other site 394221003874 catalytic triad [active] 394221003875 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 394221003876 active site 394221003877 phosphorylation site [posttranslational modification] 394221003878 intermolecular recognition site; other site 394221003879 dimerization interface [polypeptide binding]; other site 394221003880 CTP synthetase; Validated; Region: pyrG; PRK05380 394221003881 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 394221003882 Catalytic site [active] 394221003883 active site 394221003884 UTP binding site [chemical binding]; other site 394221003885 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 394221003886 active site 394221003887 putative oxyanion hole; other site 394221003888 catalytic triad [active] 394221003889 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 394221003890 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394221003891 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221003892 catalytic residue [active] 394221003893 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 394221003894 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 394221003895 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 394221003896 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 394221003897 Potassium binding sites [ion binding]; other site 394221003898 Cesium cation binding sites [ion binding]; other site 394221003899 enolase; Provisional; Region: eno; PRK00077 394221003900 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 394221003901 dimer interface [polypeptide binding]; other site 394221003902 metal binding site [ion binding]; metal-binding site 394221003903 substrate binding pocket [chemical binding]; other site 394221003904 Septum formation initiator; Region: DivIC; cl11433 394221003905 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 394221003906 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 394221003907 tetramer interface [polypeptide binding]; other site 394221003908 TPP-binding site [chemical binding]; other site 394221003909 heterodimer interface [polypeptide binding]; other site 394221003910 phosphorylation loop region [posttranslational modification] 394221003911 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 394221003912 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 394221003913 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394221003914 E3 interaction surface; other site 394221003915 lipoyl attachment site [posttranslational modification]; other site 394221003916 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 394221003917 alpha subunit interface [polypeptide binding]; other site 394221003918 TPP binding site [chemical binding]; other site 394221003919 heterodimer interface [polypeptide binding]; other site 394221003920 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394221003921 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 394221003922 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 394221003923 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394221003924 E3 interaction surface; other site 394221003925 lipoyl attachment site [posttranslational modification]; other site 394221003926 e3 binding domain; Region: E3_binding; pfam02817 394221003927 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 394221003928 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 394221003929 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 394221003930 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 394221003931 ACT domain; Region: ACT_3; pfam10000 394221003932 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 394221003933 Cupin domain; Region: Cupin_2; cl09118 394221003934 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 394221003935 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394221003936 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394221003937 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 394221003938 AMP-binding enzyme; Region: AMP-binding; cl15778 394221003939 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 394221003940 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 394221003941 Zn binding site [ion binding]; other site 394221003942 SET domain; Region: SET; cl02566 394221003943 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 394221003944 lipoyl synthase; Provisional; Region: PRK05481 394221003945 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394221003946 FeS/SAM binding site; other site 394221003947 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 394221003948 putative coenzyme Q binding site [chemical binding]; other site 394221003949 Competence-damaged protein; Region: CinA; cl00666 394221003950 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 394221003951 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 394221003952 substrate binding site; other site 394221003953 dimer interface; other site 394221003954 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 394221003955 homotrimer interaction site [polypeptide binding]; other site 394221003956 zinc binding site [ion binding]; other site 394221003957 CDP-binding sites; other site 394221003958 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 394221003959 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 394221003960 FMN binding site [chemical binding]; other site 394221003961 active site 394221003962 catalytic residues [active] 394221003963 substrate binding site [chemical binding]; other site 394221003964 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 394221003965 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221003966 dimer interface [polypeptide binding]; other site 394221003967 phosphorylation site [posttranslational modification] 394221003968 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221003969 ATP binding site [chemical binding]; other site 394221003970 Mg2+ binding site [ion binding]; other site 394221003971 G-X-G motif; other site 394221003972 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 394221003973 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221003974 active site 394221003975 phosphorylation site [posttranslational modification] 394221003976 intermolecular recognition site; other site 394221003977 dimerization interface [polypeptide binding]; other site 394221003978 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221003979 Helix-turn-helix domains; Region: HTH; cl00088 394221003980 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 394221003981 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394221003982 dimerization interface [polypeptide binding]; other site 394221003983 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221003984 dimer interface [polypeptide binding]; other site 394221003985 phosphorylation site [posttranslational modification] 394221003986 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221003987 ATP binding site [chemical binding]; other site 394221003988 Mg2+ binding site [ion binding]; other site 394221003989 G-X-G motif; other site 394221003990 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 394221003991 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221003992 active site 394221003993 phosphorylation site [posttranslational modification] 394221003994 intermolecular recognition site; other site 394221003995 dimerization interface [polypeptide binding]; other site 394221003996 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221003997 Walker A motif; other site 394221003998 ATP binding site [chemical binding]; other site 394221003999 Walker B motif; other site 394221004000 arginine finger; other site 394221004001 Helix-turn-helix domains; Region: HTH; cl00088 394221004002 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 394221004003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221004004 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221004005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221004006 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221004007 Cation transport protein; Region: TrkH; cl10514 394221004008 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 394221004009 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 394221004010 homodimer interface [polypeptide binding]; other site 394221004011 substrate-cofactor binding pocket; other site 394221004012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221004013 catalytic residue [active] 394221004014 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 394221004015 Sm1 motif; other site 394221004016 intra - hexamer interaction site; other site 394221004017 inter - hexamer interaction site [polypeptide binding]; other site 394221004018 nucleotide binding pocket [chemical binding]; other site 394221004019 Sm2 motif; other site 394221004020 GTPases [General function prediction only]; Region: HflX; COG2262 394221004021 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 394221004022 HflX GTPase family; Region: HflX; cd01878 394221004023 G1 box; other site 394221004024 GTP/Mg2+ binding site [chemical binding]; other site 394221004025 Switch I region; other site 394221004026 G2 box; other site 394221004027 G3 box; other site 394221004028 Switch II region; other site 394221004029 G4 box; other site 394221004030 G5 box; other site 394221004031 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 394221004032 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 394221004033 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 394221004034 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 394221004035 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 394221004036 active site 394221004037 DNA polymerase III subunit delta'; Validated; Region: PRK07471 394221004038 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221004039 thymidylate kinase; Validated; Region: tmk; PRK00698 394221004040 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 394221004041 TMP-binding site; other site 394221004042 ATP-binding site [chemical binding]; other site 394221004043 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 394221004044 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221004045 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 394221004046 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 394221004047 rare lipoprotein A; Region: rlpA; TIGR00413 394221004048 Sporulation related domain; Region: SPOR; cl10051 394221004049 TolB amino-terminal domain; Region: TolB_N; cl00639 394221004050 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 394221004051 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 394221004052 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221004053 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 394221004054 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221004055 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 394221004056 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394221004057 Coenzyme A binding pocket [chemical binding]; other site 394221004058 Predicted amidohydrolase [General function prediction only]; Region: COG0388 394221004059 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 394221004060 putative active site [active] 394221004061 catalytic triad [active] 394221004062 putative dimer interface [polypeptide binding]; other site 394221004063 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 394221004064 TMAO/DMSO reductase; Reviewed; Region: PRK05363 394221004065 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 394221004066 Moco binding site; other site 394221004067 metal coordination site [ion binding]; other site 394221004068 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 394221004069 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 394221004070 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 394221004071 putative active site [active] 394221004072 Zn binding site [ion binding]; other site 394221004073 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 394221004074 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 394221004075 Angiotensin-converting enzyme; Region: Peptidase_M2; pfam01401 394221004076 active site 394221004077 Zn binding site [ion binding]; other site 394221004078 HupE / UreJ protein; Region: HupE_UreJ; cl01011 394221004079 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 394221004080 Putative cyclase; Region: Cyclase; cl00814 394221004081 kynureninase; Region: kynureninase; TIGR01814 394221004082 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394221004083 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221004084 catalytic residue [active] 394221004085 Helix-turn-helix domains; Region: HTH; cl00088 394221004086 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 394221004087 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 394221004088 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 394221004089 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394221004090 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221004091 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394221004092 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 394221004093 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 394221004094 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 394221004095 Predicted transcriptional regulator [Transcription]; Region: COG2378 394221004096 WYL domain; Region: WYL; cl14852 394221004097 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 394221004098 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221004099 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221004100 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221004101 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 394221004102 CoA-transferase family III; Region: CoA_transf_3; pfam02515 394221004103 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 394221004104 active site 394221004105 phosphorylation site [posttranslational modification] 394221004106 intermolecular recognition site; other site 394221004107 dimerization interface [polypeptide binding]; other site 394221004108 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 394221004109 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 394221004110 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 394221004111 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394221004112 ATP binding site [chemical binding]; other site 394221004113 putative Mg++ binding site [ion binding]; other site 394221004114 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394221004115 nucleotide binding region [chemical binding]; other site 394221004116 ATP-binding site [chemical binding]; other site 394221004117 TRCF domain; Region: TRCF; cl04088 394221004118 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 394221004119 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 394221004120 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 394221004121 generic binding surface II; other site 394221004122 ssDNA binding site; other site 394221004123 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394221004124 ATP binding site [chemical binding]; other site 394221004125 putative Mg++ binding site [ion binding]; other site 394221004126 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394221004127 nucleotide binding region [chemical binding]; other site 394221004128 ATP-binding site [chemical binding]; other site 394221004129 Protein of unknown function (DUF502); Region: DUF502; cl01107 394221004130 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 394221004131 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 394221004132 NeuB family; Region: NeuB; cl00496 394221004133 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 394221004134 DNA photolyase; Region: DNA_photolyase; pfam00875 394221004135 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 394221004136 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 394221004137 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 394221004138 dimer interface [polypeptide binding]; other site 394221004139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221004140 catalytic residue [active] 394221004141 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 394221004142 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 394221004143 active site residue [active] 394221004144 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 394221004145 active site residue [active] 394221004146 cystathionine beta-lyase, bacterial; Region: cysta_beta_ly_B; TIGR01324 394221004147 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394221004148 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221004149 catalytic residue [active] 394221004150 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 394221004151 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 394221004152 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 394221004153 DNA-binding site [nucleotide binding]; DNA binding site 394221004154 RNA-binding motif; other site 394221004155 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 394221004156 DNA-binding site [nucleotide binding]; DNA binding site 394221004157 RNA-binding motif; other site 394221004158 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 394221004159 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221004160 non-specific DNA binding site [nucleotide binding]; other site 394221004161 salt bridge; other site 394221004162 sequence-specific DNA binding site [nucleotide binding]; other site 394221004163 multiple promoter invertase; Provisional; Region: mpi; PRK13413 394221004164 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 394221004165 catalytic residues [active] 394221004166 catalytic nucleophile [active] 394221004167 Presynaptic Site I dimer interface [polypeptide binding]; other site 394221004168 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 394221004169 Synaptic Flat tetramer interface [polypeptide binding]; other site 394221004170 Synaptic Site I dimer interface [polypeptide binding]; other site 394221004171 DNA binding site [nucleotide binding] 394221004172 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 394221004173 DNA-binding interface [nucleotide binding]; DNA binding site 394221004174 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 394221004175 Ca2+ binding site [ion binding]; other site 394221004176 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 394221004177 Ca2+ binding site [ion binding]; other site 394221004178 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 394221004179 Ca2+ binding site [ion binding]; other site 394221004180 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394221004181 Int/Topo IB signature motif; other site 394221004182 active site 394221004183 DNA binding site [nucleotide binding] 394221004184 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 394221004185 DHH family; Region: DHH; pfam01368 394221004186 DHHA1 domain; Region: DHHA1; pfam02272 394221004187 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 394221004188 putative active site [active] 394221004189 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 394221004190 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 394221004191 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 394221004192 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 394221004193 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 394221004194 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221004195 Walker A/P-loop; other site 394221004196 ATP binding site [chemical binding]; other site 394221004197 Q-loop/lid; other site 394221004198 ABC transporter signature motif; other site 394221004199 Walker B; other site 394221004200 D-loop; other site 394221004201 H-loop/switch region; other site 394221004202 Methyltransferase domain; Region: Methyltransf_31; pfam13847 394221004203 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221004204 S-adenosylmethionine binding site [chemical binding]; other site 394221004205 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394221004206 Helix-turn-helix domains; Region: HTH; cl00088 394221004207 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394221004208 dimerization interface [polypeptide binding]; other site 394221004209 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 394221004210 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 394221004211 23S rRNA interface [nucleotide binding]; other site 394221004212 L3 interface [polypeptide binding]; other site 394221004213 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 394221004214 Helix-turn-helix domains; Region: HTH; cl00088 394221004215 CAAX protease self-immunity; Region: Abi; cl00558 394221004216 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 394221004217 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 394221004218 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394221004219 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 394221004220 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 394221004221 DNA binding residues [nucleotide binding] 394221004222 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 394221004223 IHF dimer interface [polypeptide binding]; other site 394221004224 IHF - DNA interface [nucleotide binding]; other site 394221004225 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 394221004226 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 394221004227 dimer interface [polypeptide binding]; other site 394221004228 active site 394221004229 CoA binding pocket [chemical binding]; other site 394221004230 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 394221004231 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 394221004232 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 394221004233 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221004234 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 394221004235 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 394221004236 thiamine-monophosphate kinase; Region: thiL; TIGR01379 394221004237 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 394221004238 ATP binding site [chemical binding]; other site 394221004239 dimerization interface [polypeptide binding]; other site 394221004240 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 394221004241 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 394221004242 homopentamer interface [polypeptide binding]; other site 394221004243 active site 394221004244 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 394221004245 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 394221004246 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 394221004247 dimerization interface [polypeptide binding]; other site 394221004248 active site 394221004249 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 394221004250 Lumazine binding domain; Region: Lum_binding; pfam00677 394221004251 Lumazine binding domain; Region: Lum_binding; pfam00677 394221004252 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 394221004253 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 394221004254 ATP cone domain; Region: ATP-cone; pfam03477 394221004255 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 394221004256 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 394221004257 dimer interface [polypeptide binding]; other site 394221004258 glycine-pyridoxal phosphate binding site [chemical binding]; other site 394221004259 active site 394221004260 folate binding site [chemical binding]; other site 394221004261 Predicted transcriptional regulator [Transcription]; Region: COG4957 394221004262 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 394221004263 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 394221004264 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 394221004265 substrate-cofactor binding pocket; other site 394221004266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221004267 catalytic residue [active] 394221004268 Helix-turn-helix domains; Region: HTH; cl00088 394221004269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221004270 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 394221004271 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 394221004272 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394221004273 substrate binding site [chemical binding]; other site 394221004274 oxyanion hole (OAH) forming residues; other site 394221004275 trimer interface [polypeptide binding]; other site 394221004276 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 394221004277 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 394221004278 putative active site [active] 394221004279 homotetrameric interface [polypeptide binding]; other site 394221004280 metal binding site [ion binding]; metal-binding site 394221004281 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 394221004282 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 394221004283 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 394221004284 substrate binding pocket [chemical binding]; other site 394221004285 FAD binding site [chemical binding]; other site 394221004286 catalytic base [active] 394221004287 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 394221004288 dimer interface [polypeptide binding]; other site 394221004289 allosteric magnesium binding site [ion binding]; other site 394221004290 active site 394221004291 aspartate-rich active site metal binding site; other site 394221004292 Schiff base residues; other site 394221004293 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 394221004294 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394221004295 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221004296 catalytic residue [active] 394221004297 Predicted membrane protein [Function unknown]; Region: COG2860 394221004298 UPF0126 domain; Region: UPF0126; pfam03458 394221004299 UPF0126 domain; Region: UPF0126; pfam03458 394221004300 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 394221004301 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221004302 Penicillin amidase; Region: Penicil_amidase; pfam01804 394221004303 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 394221004304 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 394221004305 active site 394221004306 Flavin Reductases; Region: FlaRed; cl00801 394221004307 flagellar motor protein MotB; Validated; Region: motB; PRK09041 394221004308 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 394221004309 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394221004310 ligand binding site [chemical binding]; other site 394221004311 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 394221004312 putative hydrophobic ligand binding site [chemical binding]; other site 394221004313 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221004314 dimerization interface [polypeptide binding]; other site 394221004315 putative DNA binding site [nucleotide binding]; other site 394221004316 putative Zn2+ binding site [ion binding]; other site 394221004317 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221004318 transmembrane helices; other site 394221004319 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221004320 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221004321 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221004322 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 394221004323 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 394221004324 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221004325 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 394221004326 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 394221004327 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 394221004328 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 394221004329 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 394221004330 Domain of unknown function DUF20; Region: UPF0118; pfam01594 394221004331 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 394221004332 Peptidase family M48; Region: Peptidase_M48; cl12018 394221004333 LemA family; Region: LemA; cl00742 394221004334 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 394221004335 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 394221004336 CAP-like domain; other site 394221004337 active site 394221004338 primary dimer interface [polypeptide binding]; other site 394221004339 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 394221004340 Recombination protein O N terminal; Region: RecO_N; cl15812 394221004341 Recombination protein O C terminal; Region: RecO_C; pfam02565 394221004342 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 394221004343 putative active site [active] 394221004344 GTPase Era; Reviewed; Region: era; PRK00089 394221004345 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 394221004346 G1 box; other site 394221004347 GTP/Mg2+ binding site [chemical binding]; other site 394221004348 Switch I region; other site 394221004349 G2 box; other site 394221004350 Switch II region; other site 394221004351 G3 box; other site 394221004352 G4 box; other site 394221004353 G5 box; other site 394221004354 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 394221004355 ribonuclease III; Reviewed; Region: rnc; PRK00102 394221004356 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 394221004357 dimerization interface [polypeptide binding]; other site 394221004358 active site 394221004359 metal binding site [ion binding]; metal-binding site 394221004360 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 394221004361 dsRNA binding site [nucleotide binding]; other site 394221004362 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 394221004363 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 394221004364 active site 394221004365 hydrophilic channel; other site 394221004366 dimerization interface [polypeptide binding]; other site 394221004367 catalytic residues [active] 394221004368 active site lid [active] 394221004369 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 394221004370 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394221004371 active site 394221004372 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 394221004373 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 394221004374 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 394221004375 synthetase active site [active] 394221004376 NTP binding site [chemical binding]; other site 394221004377 metal binding site [ion binding]; metal-binding site 394221004378 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 394221004379 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 394221004380 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 394221004381 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 394221004382 catalytic center binding site [active] 394221004383 ATP binding site [chemical binding]; other site 394221004384 Uncharacterized conserved protein [Function unknown]; Region: COG1432 394221004385 LabA_like proteins; Region: LabA; cd10911 394221004386 putative metal binding site [ion binding]; other site 394221004387 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 394221004388 Fe-S cluster binding site [ion binding]; other site 394221004389 DNA binding site [nucleotide binding] 394221004390 active site 394221004391 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394221004392 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 394221004393 conserved cys residue [active] 394221004394 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 394221004395 SmpB-tmRNA interface; other site 394221004396 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 394221004397 dihydrodipicolinate synthase; Region: dapA; TIGR00674 394221004398 dimer interface [polypeptide binding]; other site 394221004399 active site 394221004400 catalytic residue [active] 394221004401 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 394221004402 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 394221004403 N-acetyl-D-glucosamine binding site [chemical binding]; other site 394221004404 catalytic residue [active] 394221004405 Helix-turn-helix domains; Region: HTH; cl00088 394221004406 WYL domain; Region: WYL; cl14852 394221004407 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 394221004408 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221004409 non-specific DNA binding site [nucleotide binding]; other site 394221004410 salt bridge; other site 394221004411 sequence-specific DNA binding site [nucleotide binding]; other site 394221004412 2TM domain; Region: 2TM; pfam13239 394221004413 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 394221004414 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 394221004415 tetramer interface [polypeptide binding]; other site 394221004416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221004417 catalytic residue [active] 394221004418 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 394221004419 AMP-binding enzyme; Region: AMP-binding; cl15778 394221004420 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 394221004421 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 394221004422 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394221004423 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 394221004424 putative FMN binding site [chemical binding]; other site 394221004425 putative dimer interface [polypeptide binding]; other site 394221004426 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 394221004427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221004428 NAD(P) binding site [chemical binding]; other site 394221004429 Predicted dehydrogenase [General function prediction only]; Region: COG0579 394221004430 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221004431 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221004432 Amidohydrolase; Region: Amidohydro_4; pfam13147 394221004433 active site 394221004434 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 394221004435 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 394221004436 substrate-cofactor binding pocket; other site 394221004437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221004438 catalytic residue [active] 394221004439 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221004440 urocanate hydratase; Provisional; Region: PRK05414 394221004441 N-formylglutamate amidohydrolase; Region: FGase; cl01522 394221004442 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 394221004443 active sites [active] 394221004444 tetramer interface [polypeptide binding]; other site 394221004445 imidazolonepropionase; Validated; Region: PRK09356 394221004446 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 394221004447 active site 394221004448 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 394221004449 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 394221004450 active site 394221004451 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 394221004452 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394221004453 DNA-binding site [nucleotide binding]; DNA binding site 394221004454 UTRA domain; Region: UTRA; cl01230 394221004455 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 394221004456 LytTr DNA-binding domain; Region: LytTR; cl04498 394221004457 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 394221004458 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394221004459 N-terminal plug; other site 394221004460 ligand-binding site [chemical binding]; other site 394221004461 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 394221004462 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 394221004463 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 394221004464 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 394221004465 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 394221004466 substrate binding site [chemical binding]; other site 394221004467 glutamase interaction surface [polypeptide binding]; other site 394221004468 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 394221004469 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 394221004470 catalytic residues [active] 394221004471 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 394221004472 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 394221004473 putative active site [active] 394221004474 oxyanion strand; other site 394221004475 catalytic triad [active] 394221004476 histidinol dehydrogenase; Region: hisD; TIGR00069 394221004477 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 394221004478 NAD binding site [chemical binding]; other site 394221004479 dimerization interface [polypeptide binding]; other site 394221004480 product binding site; other site 394221004481 substrate binding site [chemical binding]; other site 394221004482 zinc binding site [ion binding]; other site 394221004483 catalytic residues [active] 394221004484 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 394221004485 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 394221004486 putative active site pocket [active] 394221004487 4-fold oligomerization interface [polypeptide binding]; other site 394221004488 metal binding residues [ion binding]; metal-binding site 394221004489 3-fold/trimer interface [polypeptide binding]; other site 394221004490 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 394221004491 ATP phosphoribosyltransferase; Region: HisG; cl15266 394221004492 HisG, C-terminal domain; Region: HisG_C; cl06867 394221004493 Helix-turn-helix domains; Region: HTH; cl00088 394221004494 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221004495 dimerization interface [polypeptide binding]; other site 394221004496 putative DNA binding site [nucleotide binding]; other site 394221004497 putative Zn2+ binding site [ion binding]; other site 394221004498 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 394221004499 active site residue [active] 394221004500 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 394221004501 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 394221004502 Sulfate transporter family; Region: Sulfate_transp; cl15842 394221004503 high affinity sulphate transporter 1; Region: sulP; TIGR00815 394221004504 Sulfate transporter family; Region: Sulfate_transp; cl15842 394221004505 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 394221004506 acetyl-CoA synthetase; Provisional; Region: PRK00174 394221004507 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 394221004508 AMP-binding enzyme; Region: AMP-binding; cl15778 394221004509 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 394221004510 malate synthase A; Region: malate_syn_A; TIGR01344 394221004511 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 394221004512 active site 394221004513 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 394221004514 tetramer interface [polypeptide binding]; other site 394221004515 active site 394221004516 Mg2+/Mn2+ binding site [ion binding]; other site 394221004517 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 394221004518 Domain of unknown function (DUF955); Region: DUF955; cl01076 394221004519 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 394221004520 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 394221004521 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 394221004522 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 394221004523 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 394221004524 dinuclear metal binding motif [ion binding]; other site 394221004525 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 394221004526 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 394221004527 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221004528 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221004529 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 394221004530 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221004531 choline dehydrogenase; Validated; Region: PRK02106 394221004532 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394221004533 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394221004534 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 394221004535 NAD(P) binding site [chemical binding]; other site 394221004536 catalytic residues [active] 394221004537 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394221004538 classical (c) SDRs; Region: SDR_c; cd05233 394221004539 NAD(P) binding site [chemical binding]; other site 394221004540 active site 394221004541 Response regulator receiver domain; Region: Response_reg; pfam00072 394221004542 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221004543 active site 394221004544 phosphorylation site [posttranslational modification] 394221004545 intermolecular recognition site; other site 394221004546 dimerization interface [polypeptide binding]; other site 394221004547 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 394221004548 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 394221004549 tetramer interface [polypeptide binding]; other site 394221004550 active site 394221004551 Mg2+/Mn2+ binding site [ion binding]; other site 394221004552 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 394221004553 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 394221004554 active site 394221004555 putative substrate binding pocket [chemical binding]; other site 394221004556 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221004557 bile acid transporter; Region: bass; TIGR00841 394221004558 Membrane transport protein; Region: Mem_trans; cl09117 394221004559 Helix-turn-helix domains; Region: HTH; cl00088 394221004560 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 394221004561 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 394221004562 putative metal binding site [ion binding]; other site 394221004563 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 394221004564 Interdomain contacts; other site 394221004565 Cytokine receptor motif; other site 394221004566 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 394221004567 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 394221004568 NAD(P) binding site [chemical binding]; other site 394221004569 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 394221004570 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 394221004571 NAD binding site [chemical binding]; other site 394221004572 homodimer interface [polypeptide binding]; other site 394221004573 active site 394221004574 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 394221004575 putative active site [active] 394221004576 putative catalytic site [active] 394221004577 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 394221004578 AMP-binding enzyme; Region: AMP-binding; cl15778 394221004579 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 394221004580 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394221004581 active site 394221004582 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394221004583 classical (c) SDRs; Region: SDR_c; cd05233 394221004584 NAD(P) binding site [chemical binding]; other site 394221004585 active site 394221004586 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 394221004587 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 394221004588 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 394221004589 active site 394221004590 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394221004591 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 394221004592 active site 394221004593 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 394221004594 Di-iron ligands [ion binding]; other site 394221004595 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 394221004596 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 394221004597 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 394221004598 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221004599 TPR motif; other site 394221004600 binding surface 394221004601 Cytochrome C biogenesis protein; Region: CcmH; cl01179 394221004602 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 394221004603 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 394221004604 catalytic residues [active] 394221004605 central insert; other site 394221004606 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 394221004607 Sodium:solute symporter family; Region: SSF; cl00456 394221004608 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 394221004609 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 394221004610 FAD binding site [chemical binding]; other site 394221004611 substrate binding pocket [chemical binding]; other site 394221004612 catalytic base [active] 394221004613 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 394221004614 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 394221004615 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 394221004616 BNR repeat-like domain; Region: BNR_2; pfam13088 394221004617 VPS10 domain; Region: VPS10; smart00602 394221004618 VPS10 domain; Region: VPS10; smart00602 394221004619 FlgD Ig-like domain; Region: FlgD_ig; cl15790 394221004620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221004621 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 394221004622 NAD(P) binding site [chemical binding]; other site 394221004623 active site 394221004624 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 394221004625 oxidoreductase; Provisional; Region: PRK06196 394221004626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221004627 NAD(P) binding site [chemical binding]; other site 394221004628 active site 394221004629 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 394221004630 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 394221004631 Peptidase M15; Region: Peptidase_M15_3; cl01194 394221004632 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394221004633 enoyl-CoA hydratase; Provisional; Region: PRK07509 394221004634 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394221004635 substrate binding site [chemical binding]; other site 394221004636 oxyanion hole (OAH) forming residues; other site 394221004637 trimer interface [polypeptide binding]; other site 394221004638 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 394221004639 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 394221004640 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 394221004641 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 394221004642 active site residue [active] 394221004643 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394221004644 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 394221004645 putative GSH binding site (G-site) [chemical binding]; other site 394221004646 active site cysteine [active] 394221004647 putative C-terminal domain interface [polypeptide binding]; other site 394221004648 putative dimer interface [polypeptide binding]; other site 394221004649 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 394221004650 putative N-terminal domain interface [polypeptide binding]; other site 394221004651 putative dimer interface [polypeptide binding]; other site 394221004652 putative substrate binding pocket (H-site) [chemical binding]; other site 394221004653 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394221004654 N-terminal plug; other site 394221004655 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 394221004656 ligand-binding site [chemical binding]; other site 394221004657 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 394221004658 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 394221004659 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 394221004660 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 394221004661 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221004662 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 394221004663 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221004664 active site 394221004665 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 394221004666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221004667 Bacterial sugar transferase; Region: Bac_transf; cl00939 394221004668 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 394221004669 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 394221004670 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221004671 MatE; Region: MatE; cl10513 394221004672 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394221004673 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 394221004674 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 394221004675 active site 394221004676 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 394221004677 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 394221004678 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 394221004679 Chain length determinant protein; Region: Wzz; cl15801 394221004680 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 394221004681 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 394221004682 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 394221004683 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 394221004684 Walker A/P-loop; other site 394221004685 ATP binding site [chemical binding]; other site 394221004686 Q-loop/lid; other site 394221004687 ABC transporter signature motif; other site 394221004688 Walker B; other site 394221004689 D-loop; other site 394221004690 H-loop/switch region; other site 394221004691 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394221004692 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221004693 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 394221004694 EF-hand domain pair; Region: EF_hand_5; pfam13499 394221004695 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394221004696 Sel1 repeat; Region: Sel1; cl02723 394221004697 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 394221004698 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 394221004699 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 394221004700 Mechanosensitive ion channel; Region: MS_channel; pfam00924 394221004701 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 394221004702 putative active site [active] 394221004703 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 394221004704 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 394221004705 GatB domain; Region: GatB_Yqey; cl11497 394221004706 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 394221004707 Amidase; Region: Amidase; cl11426 394221004708 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 394221004709 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 394221004710 Membrane transport protein; Region: Mem_trans; cl09117 394221004711 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 394221004712 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 394221004713 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221004714 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 394221004715 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 394221004716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221004717 dihydroorotase; Validated; Region: pyrC; PRK09357 394221004718 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221004719 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 394221004720 active site 394221004721 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 394221004722 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 394221004723 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 394221004724 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 394221004725 ATPase MipZ; Region: MipZ; pfam09140 394221004726 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394221004727 P-loop; other site 394221004728 Magnesium ion binding site [ion binding]; other site 394221004729 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394221004730 Magnesium ion binding site [ion binding]; other site 394221004731 Sporulation related domain; Region: SPOR; cl10051 394221004732 Pantoate-beta-alanine ligase; Region: PanC; cd00560 394221004733 pantoate--beta-alanine ligase; Region: panC; TIGR00018 394221004734 active site 394221004735 ATP-binding site [chemical binding]; other site 394221004736 pantoate-binding site; other site 394221004737 HXXH motif; other site 394221004738 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 394221004739 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 394221004740 JmjC domain, hydroxylase; Region: JmjC; cl15814 394221004741 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 394221004742 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394221004743 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221004744 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 394221004745 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 394221004746 carboxyltransferase (CT) interaction site; other site 394221004747 biotinylation site [posttranslational modification]; other site 394221004748 Protein of unknown function (DUF817); Region: DUF817; cl01520 394221004749 enoyl-CoA hydratase; Provisional; Region: PRK05995 394221004750 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394221004751 substrate binding site [chemical binding]; other site 394221004752 oxyanion hole (OAH) forming residues; other site 394221004753 trimer interface [polypeptide binding]; other site 394221004754 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 394221004755 SOUL heme-binding protein; Region: SOUL; pfam04832 394221004756 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 394221004757 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 394221004758 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 394221004759 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 394221004760 Virulence-associated protein E; Region: VirE; pfam05272 394221004761 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394221004762 ligand binding site [chemical binding]; other site 394221004763 flexible hinge region; other site 394221004764 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 394221004765 active site 394221004766 nucleophile elbow; other site 394221004767 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 394221004768 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 394221004769 isovaleryl-CoA dehydrogenase; Region: PLN02519 394221004770 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 394221004771 substrate binding site [chemical binding]; other site 394221004772 FAD binding site [chemical binding]; other site 394221004773 catalytic base [active] 394221004774 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 394221004775 catalytic residue [active] 394221004776 kelch-like protein; Provisional; Region: PHA03098 394221004777 Kelch motif; Region: Kelch_1; cl02701 394221004778 Kelch motif; Region: Kelch_1; cl02701 394221004779 nitrile-specifier protein; Region: PLN02193 394221004780 Kelch motif; Region: Kelch_1; cl02701 394221004781 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 394221004782 MgtE intracellular N domain; Region: MgtE_N; cl15244 394221004783 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 394221004784 Divalent cation transporter; Region: MgtE; cl00786 394221004785 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 394221004786 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 394221004787 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 394221004788 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394221004789 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221004790 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 394221004791 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 394221004792 carboxyltransferase (CT) interaction site; other site 394221004793 biotinylation site [posttranslational modification]; other site 394221004794 Ion channel; Region: Ion_trans_2; cl11596 394221004795 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 394221004796 Fatty acid desaturase; Region: FA_desaturase; pfam00487 394221004797 putative di-iron ligands [ion binding]; other site 394221004798 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 394221004799 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 394221004800 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 394221004801 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 394221004802 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 394221004803 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 394221004804 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 394221004805 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221004806 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 394221004807 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 394221004808 ATP12 chaperone protein; Region: ATP12; cl02228 394221004809 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 394221004810 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394221004811 motif II; other site 394221004812 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 394221004813 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 394221004814 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 394221004815 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 394221004816 active site 394221004817 CrcB-like protein; Region: CRCB; cl09114 394221004818 recombination factor protein RarA; Reviewed; Region: PRK13342 394221004819 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221004820 Walker A motif; other site 394221004821 ATP binding site [chemical binding]; other site 394221004822 Walker B motif; other site 394221004823 arginine finger; other site 394221004824 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 394221004825 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 394221004826 putative dimer interface [polypeptide binding]; other site 394221004827 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221004828 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 394221004829 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 394221004830 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394221004831 protein binding site [polypeptide binding]; other site 394221004832 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394221004833 protein binding site [polypeptide binding]; other site 394221004834 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 394221004835 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 394221004836 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 394221004837 alphaNTD - beta interaction site [polypeptide binding]; other site 394221004838 alphaNTD homodimer interface [polypeptide binding]; other site 394221004839 alphaNTD - beta' interaction site [polypeptide binding]; other site 394221004840 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 394221004841 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 394221004842 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 394221004843 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 394221004844 adenylate kinase; Provisional; Region: PRK14532 394221004845 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 394221004846 AMP-binding site [chemical binding]; other site 394221004847 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 394221004848 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 394221004849 SecY translocase; Region: SecY; pfam00344 394221004850 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 394221004851 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 394221004852 23S rRNA binding site [nucleotide binding]; other site 394221004853 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 394221004854 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 394221004855 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 394221004856 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 394221004857 23S rRNA interface [nucleotide binding]; other site 394221004858 L21e interface [polypeptide binding]; other site 394221004859 5S rRNA interface [nucleotide binding]; other site 394221004860 L27 interface [polypeptide binding]; other site 394221004861 L5 interface [polypeptide binding]; other site 394221004862 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 394221004863 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 394221004864 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 394221004865 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 394221004866 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 394221004867 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 394221004868 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 394221004869 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 394221004870 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 394221004871 KOW motif; Region: KOW; cl00354 394221004872 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 394221004873 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 394221004874 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 394221004875 putative translocon interaction site; other site 394221004876 23S rRNA interface [nucleotide binding]; other site 394221004877 signal recognition particle (SRP54) interaction site; other site 394221004878 L23 interface [polypeptide binding]; other site 394221004879 trigger factor interaction site; other site 394221004880 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 394221004881 23S rRNA interface [nucleotide binding]; other site 394221004882 5S rRNA interface [nucleotide binding]; other site 394221004883 putative antibiotic binding site [chemical binding]; other site 394221004884 L25 interface [polypeptide binding]; other site 394221004885 L27 interface [polypeptide binding]; other site 394221004886 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 394221004887 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 394221004888 G-X-X-G motif; other site 394221004889 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 394221004890 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 394221004891 putative translocon binding site; other site 394221004892 protein-rRNA interface [nucleotide binding]; other site 394221004893 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 394221004894 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 394221004895 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 394221004896 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 394221004897 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 394221004898 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 394221004899 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 394221004900 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 394221004901 elongation factor Tu; Reviewed; Region: PRK00049 394221004902 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 394221004903 G1 box; other site 394221004904 GEF interaction site [polypeptide binding]; other site 394221004905 GTP/Mg2+ binding site [chemical binding]; other site 394221004906 Switch I region; other site 394221004907 G2 box; other site 394221004908 G3 box; other site 394221004909 Switch II region; other site 394221004910 G4 box; other site 394221004911 G5 box; other site 394221004912 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 394221004913 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 394221004914 Antibiotic Binding Site [chemical binding]; other site 394221004915 elongation factor G; Reviewed; Region: PRK00007 394221004916 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 394221004917 G1 box; other site 394221004918 putative GEF interaction site [polypeptide binding]; other site 394221004919 GTP/Mg2+ binding site [chemical binding]; other site 394221004920 Switch I region; other site 394221004921 G2 box; other site 394221004922 G3 box; other site 394221004923 Switch II region; other site 394221004924 G4 box; other site 394221004925 G5 box; other site 394221004926 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 394221004927 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 394221004928 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 394221004929 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 394221004930 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 394221004931 S17 interaction site [polypeptide binding]; other site 394221004932 S8 interaction site; other site 394221004933 16S rRNA interaction site [nucleotide binding]; other site 394221004934 streptomycin interaction site [chemical binding]; other site 394221004935 23S rRNA interaction site [nucleotide binding]; other site 394221004936 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 394221004937 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 394221004938 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 394221004939 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 394221004940 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 394221004941 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 394221004942 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 394221004943 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 394221004944 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 394221004945 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 394221004946 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 394221004947 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 394221004948 DNA binding site [nucleotide binding] 394221004949 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 394221004950 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 394221004951 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 394221004952 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 394221004953 RPB12 interaction site [polypeptide binding]; other site 394221004954 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 394221004955 RPB11 interaction site [polypeptide binding]; other site 394221004956 RPB12 interaction site [polypeptide binding]; other site 394221004957 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 394221004958 RPB1 interaction site [polypeptide binding]; other site 394221004959 RPB11 interaction site [polypeptide binding]; other site 394221004960 RPB10 interaction site [polypeptide binding]; other site 394221004961 RPB3 interaction site [polypeptide binding]; other site 394221004962 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 394221004963 core dimer interface [polypeptide binding]; other site 394221004964 peripheral dimer interface [polypeptide binding]; other site 394221004965 L10 interface [polypeptide binding]; other site 394221004966 L11 interface [polypeptide binding]; other site 394221004967 putative EF-Tu interaction site [polypeptide binding]; other site 394221004968 putative EF-G interaction site [polypeptide binding]; other site 394221004969 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 394221004970 23S rRNA interface [nucleotide binding]; other site 394221004971 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 394221004972 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 394221004973 mRNA/rRNA interface [nucleotide binding]; other site 394221004974 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 394221004975 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 394221004976 23S rRNA interface [nucleotide binding]; other site 394221004977 L7/L12 interface [polypeptide binding]; other site 394221004978 putative thiostrepton binding site; other site 394221004979 L25 interface [polypeptide binding]; other site 394221004980 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 394221004981 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 394221004982 putative homodimer interface [polypeptide binding]; other site 394221004983 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 394221004984 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221004985 S-adenosylmethionine binding site [chemical binding]; other site 394221004986 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221004987 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221004988 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221004989 binding surface 394221004990 TPR motif; other site 394221004991 TPR repeat; Region: TPR_11; pfam13414 394221004992 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221004993 binding surface 394221004994 TPR motif; other site 394221004995 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221004996 binding surface 394221004997 TPR motif; other site 394221004998 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 394221004999 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 394221005000 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221005001 binding surface 394221005002 TPR motif; other site 394221005003 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221005004 TPR motif; other site 394221005005 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 394221005006 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 394221005007 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 394221005008 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 394221005009 elongation factor Tu; Reviewed; Region: PRK00049 394221005010 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 394221005011 G1 box; other site 394221005012 GEF interaction site [polypeptide binding]; other site 394221005013 GTP/Mg2+ binding site [chemical binding]; other site 394221005014 Switch I region; other site 394221005015 G2 box; other site 394221005016 G3 box; other site 394221005017 Switch II region; other site 394221005018 G4 box; other site 394221005019 G5 box; other site 394221005020 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 394221005021 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 394221005022 Antibiotic Binding Site [chemical binding]; other site 394221005023 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394221005024 metal binding site [ion binding]; metal-binding site 394221005025 active site 394221005026 I-site; other site 394221005027 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 394221005028 GIY-YIG motif/motif A; other site 394221005029 putative active site [active] 394221005030 putative metal binding site [ion binding]; other site 394221005031 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 394221005032 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 394221005033 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 394221005034 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 394221005035 Protein of unknown function (DUF819); Region: DUF819; cl02317 394221005036 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394221005037 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 394221005038 putative C-terminal domain interface [polypeptide binding]; other site 394221005039 putative GSH binding site (G-site) [chemical binding]; other site 394221005040 putative dimer interface [polypeptide binding]; other site 394221005041 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 394221005042 dimer interface [polypeptide binding]; other site 394221005043 N-terminal domain interface [polypeptide binding]; other site 394221005044 putative substrate binding pocket (H-site) [chemical binding]; other site 394221005045 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 394221005046 homotrimer interaction site [polypeptide binding]; other site 394221005047 putative active site [active] 394221005048 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 394221005049 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 394221005050 metal binding site [ion binding]; metal-binding site 394221005051 putative dimer interface [polypeptide binding]; other site 394221005052 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 394221005053 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221005054 Walker A/P-loop; other site 394221005055 ATP binding site [chemical binding]; other site 394221005056 Q-loop/lid; other site 394221005057 ABC transporter signature motif; other site 394221005058 Walker B; other site 394221005059 D-loop; other site 394221005060 H-loop/switch region; other site 394221005061 ABC-2 type transporter; Region: ABC2_membrane; cl11417 394221005062 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 394221005063 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 394221005064 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 394221005065 active site 394221005066 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 394221005067 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 394221005068 active site 394221005069 HIGH motif; other site 394221005070 KMSKS motif; other site 394221005071 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 394221005072 tRNA binding surface [nucleotide binding]; other site 394221005073 anticodon binding site; other site 394221005074 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 394221005075 Cell division inhibitor SulA; Region: SulA; cl01880 394221005076 DNA Polymerase Y-family; Region: PolY_like; cd03468 394221005077 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 394221005078 DNA binding site [nucleotide binding] 394221005079 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 394221005080 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 394221005081 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 394221005082 generic binding surface I; other site 394221005083 generic binding surface II; other site 394221005084 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 394221005085 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221005086 Walker A/P-loop; other site 394221005087 ATP binding site [chemical binding]; other site 394221005088 Q-loop/lid; other site 394221005089 ABC transporter signature motif; other site 394221005090 Walker B; other site 394221005091 D-loop; other site 394221005092 H-loop/switch region; other site 394221005093 Cytochrome c; Region: Cytochrom_C; cl11414 394221005094 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 394221005095 intersubunit interface [polypeptide binding]; other site 394221005096 active site 394221005097 Zn2+ binding site [ion binding]; other site 394221005098 TIGR03440 family protein; Region: unchr_TIGR03440 394221005099 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 394221005100 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 394221005101 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 394221005102 Response regulator receiver domain; Region: Response_reg; pfam00072 394221005103 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221005104 active site 394221005105 phosphorylation site [posttranslational modification] 394221005106 intermolecular recognition site; other site 394221005107 dimerization interface [polypeptide binding]; other site 394221005108 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 394221005109 dihydromonapterin reductase; Provisional; Region: PRK06483 394221005110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221005111 NAD(P) binding site [chemical binding]; other site 394221005112 active site 394221005113 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394221005114 Helix-turn-helix domains; Region: HTH; cl00088 394221005115 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394221005116 putative effector binding pocket; other site 394221005117 dimerization interface [polypeptide binding]; other site 394221005118 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 394221005119 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 394221005120 putative NAD(P) binding site [chemical binding]; other site 394221005121 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 394221005122 Peptidase family M48; Region: Peptidase_M48; cl12018 394221005123 AsmA family; Region: AsmA; pfam05170 394221005124 AsmA-like C-terminal region; Region: AsmA_2; cl15864 394221005125 Beta/Gamma crystallin; Region: Crystall; cl02528 394221005126 Beta/Gamma crystallin; Region: Crystall; cl02528 394221005127 Beta/Gamma crystallin; Region: Crystall; cl02528 394221005128 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 394221005129 cofactor binding site; other site 394221005130 metal binding site [ion binding]; metal-binding site 394221005131 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394221005132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221005133 active site 394221005134 phosphorylation site [posttranslational modification] 394221005135 intermolecular recognition site; other site 394221005136 dimerization interface [polypeptide binding]; other site 394221005137 Succinylarginine dihydrolase; Region: AstB; cl01511 394221005138 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394221005139 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 394221005140 NAD(P) binding site [chemical binding]; other site 394221005141 catalytic residues [active] 394221005142 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 394221005143 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 394221005144 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 394221005145 metal binding site [ion binding]; metal-binding site 394221005146 dimer interface [polypeptide binding]; other site 394221005147 methionine gamma-lyase; Validated; Region: PRK07049 394221005148 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 394221005149 homodimer interface [polypeptide binding]; other site 394221005150 substrate-cofactor binding pocket; other site 394221005151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221005152 catalytic residue [active] 394221005153 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 394221005154 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394221005155 ligand binding site [chemical binding]; other site 394221005156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 394221005157 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 394221005158 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 394221005159 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 394221005160 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 394221005161 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 394221005162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221005163 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221005164 substrate binding pocket [chemical binding]; other site 394221005165 catalytic triad [active] 394221005166 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394221005167 Coenzyme A binding pocket [chemical binding]; other site 394221005168 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 394221005169 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 394221005170 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 394221005171 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 394221005172 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 394221005173 putative catalytic site [active] 394221005174 putative metal binding site [ion binding]; other site 394221005175 putative phosphate binding site [ion binding]; other site 394221005176 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 394221005177 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 394221005178 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 394221005179 active site 394221005180 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 394221005181 active site 394221005182 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 394221005183 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 394221005184 active site 394221005185 (T/H)XGH motif; other site 394221005186 DNA gyrase subunit A; Validated; Region: PRK05560 394221005187 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 394221005188 CAP-like domain; other site 394221005189 active site 394221005190 primary dimer interface [polypeptide binding]; other site 394221005191 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 394221005192 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 394221005193 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 394221005194 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 394221005195 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 394221005196 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 394221005197 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394221005198 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221005199 dimer interface [polypeptide binding]; other site 394221005200 phosphorylation site [posttranslational modification] 394221005201 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221005202 ATP binding site [chemical binding]; other site 394221005203 Mg2+ binding site [ion binding]; other site 394221005204 G-X-G motif; other site 394221005205 Response regulator receiver domain; Region: Response_reg; pfam00072 394221005206 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221005207 active site 394221005208 phosphorylation site [posttranslational modification] 394221005209 intermolecular recognition site; other site 394221005210 dimerization interface [polypeptide binding]; other site 394221005211 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394221005212 DNA binding site [nucleotide binding] 394221005213 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221005214 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 394221005215 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 394221005216 Sulfatase; Region: Sulfatase; cl10460 394221005217 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 394221005218 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 394221005219 NADH(P)-binding; Region: NAD_binding_10; pfam13460 394221005220 putative NAD(P) binding site [chemical binding]; other site 394221005221 active site 394221005222 DoxX-like family; Region: DoxX_3; pfam13781 394221005223 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 394221005224 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 394221005225 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 394221005226 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 394221005227 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 394221005228 Helix-turn-helix domains; Region: HTH; cl00088 394221005229 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 394221005230 dimer interface [polypeptide binding]; other site 394221005231 ssDNA binding site [nucleotide binding]; other site 394221005232 tetramer (dimer of dimers) interface [polypeptide binding]; other site 394221005233 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 394221005234 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 394221005235 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 394221005236 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 394221005237 CAAX protease self-immunity; Region: Abi; cl00558 394221005238 Gram-negative bacterial tonB protein; Region: TonB; cl10048 394221005239 Gram-negative bacterial tonB protein; Region: TonB; cl10048 394221005240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221005241 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 394221005242 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 394221005243 short chain dehydrogenase; Provisional; Region: PRK12827 394221005244 NADP binding site [chemical binding]; other site 394221005245 homodimer interface [polypeptide binding]; other site 394221005246 active site 394221005247 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 394221005248 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 394221005249 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 394221005250 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 394221005251 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221005252 Protein of unknown function (DUF989); Region: DUF989; pfam06181 394221005253 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 394221005254 Protein export membrane protein; Region: SecD_SecF; cl14618 394221005255 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 394221005256 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 394221005257 Protein export membrane protein; Region: SecD_SecF; cl14618 394221005258 Preprotein translocase subunit; Region: YajC; cl00806 394221005259 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 394221005260 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 394221005261 putative peptidoglycan binding site; other site 394221005262 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 394221005263 putative peptidoglycan binding site; other site 394221005264 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 394221005265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221005266 Survival protein SurE; Region: SurE; cl00448 394221005267 VCBS repeat; Region: VCBS_repeat; TIGR01965 394221005268 VCBS repeat; Region: VCBS_repeat; TIGR01965 394221005269 VCBS repeat; Region: VCBS_repeat; TIGR01965 394221005270 VCBS repeat; Region: VCBS_repeat; TIGR01965 394221005271 seryl-tRNA synthetase; Provisional; Region: PRK05431 394221005272 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 394221005273 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 394221005274 dimer interface [polypeptide binding]; other site 394221005275 active site 394221005276 motif 1; other site 394221005277 motif 2; other site 394221005278 motif 3; other site 394221005279 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 394221005280 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 394221005281 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 394221005282 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 394221005283 ScpA/B protein; Region: ScpA_ScpB; cl00598 394221005284 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 394221005285 Sporulation related domain; Region: SPOR; cl10051 394221005286 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 394221005287 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 394221005288 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 394221005289 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 394221005290 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 394221005291 putative FMN binding site [chemical binding]; other site 394221005292 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 394221005293 Zn binding site [ion binding]; other site 394221005294 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 394221005295 putative phosphate binding site [ion binding]; other site 394221005296 putative catalytic site [active] 394221005297 active site 394221005298 metal binding site A [ion binding]; metal-binding site 394221005299 DNA binding site [nucleotide binding] 394221005300 putative AP binding site [nucleotide binding]; other site 394221005301 putative metal binding site B [ion binding]; other site 394221005302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4727 394221005303 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 394221005304 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 394221005305 selenophosphate synthetase; Provisional; Region: PRK00943 394221005306 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 394221005307 dimerization interface [polypeptide binding]; other site 394221005308 putative ATP binding site [chemical binding]; other site 394221005309 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 394221005310 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 394221005311 active site residue [active] 394221005312 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 394221005313 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 394221005314 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 394221005315 HIGH motif; other site 394221005316 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 394221005317 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 394221005318 active site 394221005319 KMSKS motif; other site 394221005320 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 394221005321 tRNA binding surface [nucleotide binding]; other site 394221005322 anticodon binding site; other site 394221005323 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 394221005324 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221005325 dimer interface [polypeptide binding]; other site 394221005326 phosphorylation site [posttranslational modification] 394221005327 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221005328 ATP binding site [chemical binding]; other site 394221005329 Mg2+ binding site [ion binding]; other site 394221005330 G-X-G motif; other site 394221005331 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394221005332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221005333 active site 394221005334 phosphorylation site [posttranslational modification] 394221005335 intermolecular recognition site; other site 394221005336 dimerization interface [polypeptide binding]; other site 394221005337 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 394221005338 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 394221005339 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 394221005340 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 394221005341 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 394221005342 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 394221005343 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 394221005344 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 394221005345 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 394221005346 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 394221005347 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 394221005348 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 394221005349 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 394221005350 FliP family; Region: FliP; cl00593 394221005351 MgtE intracellular N domain; Region: MgtE_N; cl15244 394221005352 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 394221005353 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 394221005354 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 394221005355 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 394221005356 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 394221005357 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 394221005358 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 394221005359 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 394221005360 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK12786 394221005361 SAF domain; Region: SAF; cl00555 394221005362 Flagellar L-ring protein; Region: FlgH; cl00905 394221005363 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 394221005364 Class II flagellar assembly regulator; Region: FliX; cl11677 394221005365 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 394221005366 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 394221005367 Rod binding protein; Region: Rod-binding; cl01626 394221005368 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221005369 S-adenosylmethionine binding site [chemical binding]; other site 394221005370 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 394221005371 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 394221005372 NAD(P) binding site [chemical binding]; other site 394221005373 homodimer interface [polypeptide binding]; other site 394221005374 substrate binding site [chemical binding]; other site 394221005375 active site 394221005376 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 394221005377 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 394221005378 inhibitor-cofactor binding pocket; inhibition site 394221005379 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221005380 catalytic residue [active] 394221005381 flagellin; Reviewed; Region: PRK12687 394221005382 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 394221005383 FlaG protein; Region: FlaG; cl00591 394221005384 flagellin; Reviewed; Region: PRK12687 394221005385 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 394221005386 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 394221005387 flagellin; Reviewed; Region: PRK12687 394221005388 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 394221005389 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 394221005390 Flagellar protein FlaF; Region: FlaF; cl11454 394221005391 Flagellar protein FlbT; Region: FlbT; cl11455 394221005392 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 394221005393 binding surface 394221005394 TPR motif; other site 394221005395 TPR repeat; Region: TPR_11; pfam13414 394221005396 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221005397 TPR motif; other site 394221005398 binding surface 394221005399 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221005400 binding surface 394221005401 TPR motif; other site 394221005402 TPR repeat; Region: TPR_11; pfam13414 394221005403 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 394221005404 ligand binding site; other site 394221005405 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 394221005406 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 394221005407 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221005408 pseudaminic acid synthase; Region: PseI; TIGR03586 394221005409 NeuB family; Region: NeuB; cl00496 394221005410 SAF domain; Region: SAF; cl00555 394221005411 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 394221005412 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 394221005413 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 394221005414 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221005415 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394221005416 active site 394221005417 NeuB family; Region: NeuB; cl00496 394221005418 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 394221005419 GIY-YIG motif/motif A; other site 394221005420 putative active site [active] 394221005421 putative metal binding site [ion binding]; other site 394221005422 Cupin domain; Region: Cupin_2; cl09118 394221005423 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 394221005424 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221005425 Walker A motif; other site 394221005426 ATP binding site [chemical binding]; other site 394221005427 Walker B motif; other site 394221005428 arginine finger; other site 394221005429 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 394221005430 trimer interface [polypeptide binding]; other site 394221005431 active site 394221005432 substrate binding site [chemical binding]; other site 394221005433 CoA binding site [chemical binding]; other site 394221005434 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 394221005435 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 394221005436 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 394221005437 Cytochrome c; Region: Cytochrom_C; cl11414 394221005438 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394221005439 Helix-turn-helix domains; Region: HTH; cl00088 394221005440 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 394221005441 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394221005442 N-terminal plug; other site 394221005443 ligand-binding site [chemical binding]; other site 394221005444 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 394221005445 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 394221005446 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 394221005447 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394221005448 putative C-terminal domain interface [polypeptide binding]; other site 394221005449 putative GSH binding site (G-site) [chemical binding]; other site 394221005450 putative dimer interface [polypeptide binding]; other site 394221005451 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 394221005452 N-terminal domain interface [polypeptide binding]; other site 394221005453 dimer interface [polypeptide binding]; other site 394221005454 substrate binding pocket (H-site) [chemical binding]; other site 394221005455 Chorismate mutase type II; Region: CM_2; cl00693 394221005456 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 394221005457 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 394221005458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 394221005459 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 394221005460 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 394221005461 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394221005462 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394221005463 putative CheW interface [polypeptide binding]; other site 394221005464 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 394221005465 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394221005466 N-terminal plug; other site 394221005467 ligand-binding site [chemical binding]; other site 394221005468 Paraquat-inducible protein A; Region: PqiA; pfam04403 394221005469 Helix-turn-helix domains; Region: HTH; cl00088 394221005470 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 394221005471 maleylacetoacetate isomerase; Region: maiA; TIGR01262 394221005472 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 394221005473 C-terminal domain interface [polypeptide binding]; other site 394221005474 GSH binding site (G-site) [chemical binding]; other site 394221005475 putative dimer interface [polypeptide binding]; other site 394221005476 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 394221005477 dimer interface [polypeptide binding]; other site 394221005478 N-terminal domain interface [polypeptide binding]; other site 394221005479 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 394221005480 Predicted membrane protein [Function unknown]; Region: COG2311 394221005481 Protein of unknown function (DUF418); Region: DUF418; cl12135 394221005482 MatE; Region: MatE; cl10513 394221005483 Protein of unknown function (DUF330); Region: DUF330; cl01135 394221005484 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 394221005485 mce related protein; Region: MCE; pfam02470 394221005486 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 394221005487 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 394221005488 Walker A/P-loop; other site 394221005489 ATP binding site [chemical binding]; other site 394221005490 Q-loop/lid; other site 394221005491 ABC transporter signature motif; other site 394221005492 Walker B; other site 394221005493 D-loop; other site 394221005494 H-loop/switch region; other site 394221005495 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 394221005496 Permease; Region: Permease; cl00510 394221005497 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221005498 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 394221005499 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394221005500 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 394221005501 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221005502 S-adenosylmethionine binding site [chemical binding]; other site 394221005503 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 394221005504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221005505 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 394221005506 Serine carboxypeptidase S28; Region: Peptidase_S28; cl15279 394221005507 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221005508 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 394221005509 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 394221005510 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 394221005511 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 394221005512 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221005513 rod shape-determining protein MreD; Region: MreD; cl01087 394221005514 rod shape-determining protein MreC; Provisional; Region: PRK13922 394221005515 rod shape-determining protein MreC; Region: MreC; pfam04085 394221005516 rod shape-determining protein MreB; Provisional; Region: PRK13927 394221005517 Cell division protein FtsA; Region: FtsA; cl11496 394221005518 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 394221005519 ketol-acid reductoisomerase; Provisional; Region: PRK05479 394221005520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221005521 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 394221005522 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 394221005523 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221005524 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 394221005525 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 394221005526 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394221005527 protein binding site [polypeptide binding]; other site 394221005528 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394221005529 protein binding site [polypeptide binding]; other site 394221005530 HflC protein; Region: hflC; TIGR01932 394221005531 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 394221005532 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 394221005533 HflK protein; Region: hflK; TIGR01933 394221005534 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 394221005535 folate binding site [chemical binding]; other site 394221005536 NADP+ binding site [chemical binding]; other site 394221005537 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 394221005538 dimerization interface [polypeptide binding]; other site 394221005539 active site 394221005540 LytTr DNA-binding domain; Region: LytTR; cl04498 394221005541 MltA-interacting protein MipA; Region: MipA; cl01504 394221005542 DoxX; Region: DoxX; cl00976 394221005543 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 394221005544 Protein of unknown function (DUF692); Region: DUF692; cl01263 394221005545 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 394221005546 RNA polymerase sigma factor; Provisional; Region: PRK12539 394221005547 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394221005548 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 394221005549 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 394221005550 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 394221005551 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221005552 thymidine kinase; Provisional; Region: PRK04296 394221005553 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 394221005554 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221005555 PAS domain; Region: PAS_9; pfam13426 394221005556 putative active site [active] 394221005557 heme pocket [chemical binding]; other site 394221005558 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221005559 PAS domain; Region: PAS_9; pfam13426 394221005560 putative active site [active] 394221005561 heme pocket [chemical binding]; other site 394221005562 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394221005563 dimer interface [polypeptide binding]; other site 394221005564 putative CheW interface [polypeptide binding]; other site 394221005565 Stringent starvation protein B; Region: SspB; cl01120 394221005566 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 394221005567 CoenzymeA binding site [chemical binding]; other site 394221005568 subunit interaction site [polypeptide binding]; other site 394221005569 PHB binding site; other site 394221005570 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221005571 Endodeoxyribonuclease RusA; Region: RusA; cl01885 394221005572 fumarate hydratase; Reviewed; Region: fumC; PRK00485 394221005573 Class II fumarases; Region: Fumarase_classII; cd01362 394221005574 active site 394221005575 tetramer interface [polypeptide binding]; other site 394221005576 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 394221005577 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 394221005578 Ribbon-helix-helix domain; Region: RHH_4; cl01775 394221005579 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 394221005580 putative hydrophobic ligand binding site [chemical binding]; other site 394221005581 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221005582 dimerization interface [polypeptide binding]; other site 394221005583 putative DNA binding site [nucleotide binding]; other site 394221005584 putative Zn2+ binding site [ion binding]; other site 394221005585 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 394221005586 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 394221005587 Cl- selectivity filter; other site 394221005588 Cl- binding residues [ion binding]; other site 394221005589 pore gating glutamate residue; other site 394221005590 dimer interface [polypeptide binding]; other site 394221005591 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 394221005592 GIY-YIG motif/motif A; other site 394221005593 putative active site [active] 394221005594 putative metal binding site [ion binding]; other site 394221005595 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 394221005596 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221005597 Family description; Region: UvrD_C_2; cl15862 394221005598 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 394221005599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221005600 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221005601 LytTr DNA-binding domain; Region: LytTR; cl04498 394221005602 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 394221005603 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 394221005604 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 394221005605 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 394221005606 active site 394221005607 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221005608 dimer interface [polypeptide binding]; other site 394221005609 phosphorylation site [posttranslational modification] 394221005610 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221005611 ATP binding site [chemical binding]; other site 394221005612 Mg2+ binding site [ion binding]; other site 394221005613 G-X-G motif; other site 394221005614 Response regulator receiver domain; Region: Response_reg; pfam00072 394221005615 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221005616 active site 394221005617 phosphorylation site [posttranslational modification] 394221005618 intermolecular recognition site; other site 394221005619 dimerization interface [polypeptide binding]; other site 394221005620 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 394221005621 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 394221005622 nucleotide binding pocket [chemical binding]; other site 394221005623 K-X-D-G motif; other site 394221005624 catalytic site [active] 394221005625 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 394221005626 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 394221005627 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 394221005628 Dimer interface [polypeptide binding]; other site 394221005629 BRCT sequence motif; other site 394221005630 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 394221005631 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 394221005632 Walker A/P-loop; other site 394221005633 ATP binding site [chemical binding]; other site 394221005634 Q-loop/lid; other site 394221005635 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 394221005636 ABC transporter signature motif; other site 394221005637 Walker B; other site 394221005638 D-loop; other site 394221005639 H-loop/switch region; other site 394221005640 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 394221005641 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 394221005642 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 394221005643 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 394221005644 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 394221005645 nucleotide binding site [chemical binding]; other site 394221005646 SulA interaction site; other site 394221005647 Cell division protein FtsA; Region: FtsA; cl11496 394221005648 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 394221005649 Cell division protein FtsA; Region: FtsA; cl11496 394221005650 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 394221005651 Cell division protein FtsQ; Region: FtsQ; pfam03799 394221005652 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 394221005653 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 394221005654 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221005655 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 394221005656 FAD binding domain; Region: FAD_binding_4; pfam01565 394221005657 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 394221005658 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 394221005659 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 394221005660 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 394221005661 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 394221005662 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 394221005663 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 394221005664 active site 394221005665 homodimer interface [polypeptide binding]; other site 394221005666 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 394221005667 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 394221005668 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 394221005669 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 394221005670 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 394221005671 Mg++ binding site [ion binding]; other site 394221005672 putative catalytic motif [active] 394221005673 putative substrate binding site [chemical binding]; other site 394221005674 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 394221005675 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 394221005676 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 394221005677 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 394221005678 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 394221005679 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 394221005680 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 394221005681 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 394221005682 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 394221005683 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221005684 Septum formation initiator; Region: DivIC; cl11433 394221005685 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 394221005686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221005687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 394221005688 MraZ protein; Region: MraZ; pfam02381 394221005689 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 394221005690 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 394221005691 amidase catalytic site [active] 394221005692 Zn binding residues [ion binding]; other site 394221005693 substrate binding site [chemical binding]; other site 394221005694 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 394221005695 EamA-like transporter family; Region: EamA; cl01037 394221005696 EamA-like transporter family; Region: EamA; cl01037 394221005697 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 394221005698 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 394221005699 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 394221005700 putative metal binding site [ion binding]; other site 394221005701 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 394221005702 HSP70 interaction site [polypeptide binding]; other site 394221005703 5-oxoprolinase; Region: PLN02666 394221005704 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 394221005705 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 394221005706 YcfA-like protein; Region: YcfA; cl00752 394221005707 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 394221005708 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 394221005709 Fasciclin domain; Region: Fasciclin; cl02663 394221005710 Predicted deacylase [General function prediction only]; Region: COG3608 394221005711 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 394221005712 putative active site [active] 394221005713 Zn binding site [ion binding]; other site 394221005714 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 394221005715 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221005716 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 394221005717 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221005718 dimerization interface [polypeptide binding]; other site 394221005719 putative DNA binding site [nucleotide binding]; other site 394221005720 putative Zn2+ binding site [ion binding]; other site 394221005721 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 394221005722 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221005723 S-adenosylmethionine binding site [chemical binding]; other site 394221005724 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 394221005725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221005726 CAAX protease self-immunity; Region: Abi; cl00558 394221005727 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394221005728 DNA binding residues [nucleotide binding] 394221005729 dimerization interface [polypeptide binding]; other site 394221005730 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 394221005731 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221005732 Walker A/P-loop; other site 394221005733 ATP binding site [chemical binding]; other site 394221005734 Q-loop/lid; other site 394221005735 ABC transporter signature motif; other site 394221005736 Walker B; other site 394221005737 D-loop; other site 394221005738 H-loop/switch region; other site 394221005739 ABC transporter; Region: ABC_tran_2; pfam12848 394221005740 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 394221005741 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 394221005742 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 394221005743 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 394221005744 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221005745 Protein of unknown function DUF45; Region: DUF45; cl00636 394221005746 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394221005747 Helix-turn-helix domains; Region: HTH; cl00088 394221005748 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394221005749 ligand binding site [chemical binding]; other site 394221005750 GAF domain; Region: GAF; cl15785 394221005751 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 394221005752 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 394221005753 active site 394221005754 S1/P1 Nuclease; Region: S1-P1_nuclease; pfam02265 394221005755 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394221005756 Helix-turn-helix domains; Region: HTH; cl00088 394221005757 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394221005758 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221005759 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394221005760 Protein export membrane protein; Region: SecD_SecF; cl14618 394221005761 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 394221005762 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 394221005763 phosphate binding site [ion binding]; other site 394221005764 hypothetical protein; Validated; Region: PRK07586 394221005765 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394221005766 PYR/PP interface [polypeptide binding]; other site 394221005767 dimer interface [polypeptide binding]; other site 394221005768 TPP binding site [chemical binding]; other site 394221005769 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 394221005770 TPP-binding site [chemical binding]; other site 394221005771 dimer interface [polypeptide binding]; other site 394221005772 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 394221005773 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 394221005774 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221005775 dimer interface [polypeptide binding]; other site 394221005776 phosphorylation site [posttranslational modification] 394221005777 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221005778 ATP binding site [chemical binding]; other site 394221005779 Mg2+ binding site [ion binding]; other site 394221005780 G-X-G motif; other site 394221005781 Response regulator receiver domain; Region: Response_reg; pfam00072 394221005782 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221005783 active site 394221005784 phosphorylation site [posttranslational modification] 394221005785 intermolecular recognition site; other site 394221005786 dimerization interface [polypeptide binding]; other site 394221005787 Response regulator receiver domain; Region: Response_reg; pfam00072 394221005788 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221005789 active site 394221005790 phosphorylation site [posttranslational modification] 394221005791 intermolecular recognition site; other site 394221005792 dimerization interface [polypeptide binding]; other site 394221005793 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221005794 Protein of unknown function (DUF541); Region: SIMPL; cl01077 394221005795 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 394221005796 tetramerization interface [polypeptide binding]; other site 394221005797 active site 394221005798 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 394221005799 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 394221005800 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 394221005801 CHASE domain; Region: CHASE; cl01369 394221005802 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221005803 PAS fold; Region: PAS_3; pfam08447 394221005804 putative active site [active] 394221005805 heme pocket [chemical binding]; other site 394221005806 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221005807 dimer interface [polypeptide binding]; other site 394221005808 phosphorylation site [posttranslational modification] 394221005809 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221005810 ATP binding site [chemical binding]; other site 394221005811 Mg2+ binding site [ion binding]; other site 394221005812 G-X-G motif; other site 394221005813 Response regulator receiver domain; Region: Response_reg; pfam00072 394221005814 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221005815 active site 394221005816 phosphorylation site [posttranslational modification] 394221005817 intermolecular recognition site; other site 394221005818 dimerization interface [polypeptide binding]; other site 394221005819 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 394221005820 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 394221005821 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 394221005822 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 394221005823 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 394221005824 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 394221005825 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394221005826 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 394221005827 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394221005828 DNA binding residues [nucleotide binding] 394221005829 DNA primase, catalytic core; Region: dnaG; TIGR01391 394221005830 CHC2 zinc finger; Region: zf-CHC2; cl15369 394221005831 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 394221005832 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 394221005833 active site 394221005834 metal binding site [ion binding]; metal-binding site 394221005835 interdomain interaction site; other site 394221005836 GatB domain; Region: GatB_Yqey; cl11497 394221005837 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 394221005838 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 394221005839 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 394221005840 catalytic site [active] 394221005841 subunit interface [polypeptide binding]; other site 394221005842 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 394221005843 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 394221005844 peptide binding site [polypeptide binding]; other site 394221005845 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 394221005846 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221005847 salt bridge; other site 394221005848 non-specific DNA binding site [nucleotide binding]; other site 394221005849 sequence-specific DNA binding site [nucleotide binding]; other site 394221005850 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 394221005851 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221005852 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 394221005853 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394221005854 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221005855 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 394221005856 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394221005857 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221005858 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 394221005859 IMP binding site; other site 394221005860 dimer interface [polypeptide binding]; other site 394221005861 partial ornithine binding site; other site 394221005862 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 394221005863 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 394221005864 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 394221005865 Uncharacterized conserved protein [Function unknown]; Region: COG3268 394221005866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221005867 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 394221005868 Peptidase family M23; Region: Peptidase_M23; pfam01551 394221005869 Helix-turn-helix domains; Region: HTH; cl00088 394221005870 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 394221005871 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 394221005872 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 394221005873 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 394221005874 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394221005875 Protein of unknown function, DUF547; Region: DUF547; pfam04784 394221005876 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394221005877 Helix-turn-helix domains; Region: HTH; cl00088 394221005878 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394221005879 putative effector binding pocket; other site 394221005880 dimerization interface [polypeptide binding]; other site 394221005881 Ferritin-like domain; Region: Ferritin; pfam00210 394221005882 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 394221005883 dimerization interface [polypeptide binding]; other site 394221005884 DPS ferroxidase diiron center [ion binding]; other site 394221005885 ion pore; other site 394221005886 aspartate aminotransferase; Provisional; Region: PRK05764 394221005887 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394221005888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221005889 homodimer interface [polypeptide binding]; other site 394221005890 catalytic residue [active] 394221005891 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 394221005892 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 394221005893 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 394221005894 metal ion-dependent adhesion site (MIDAS); other site 394221005895 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 394221005896 active site 394221005897 catalytic site [active] 394221005898 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 394221005899 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394221005900 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221005901 catalytic residue [active] 394221005902 Response regulator receiver domain; Region: Response_reg; pfam00072 394221005903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221005904 active site 394221005905 phosphorylation site [posttranslational modification] 394221005906 intermolecular recognition site; other site 394221005907 dimerization interface [polypeptide binding]; other site 394221005908 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 394221005909 Response regulator receiver domain; Region: Response_reg; pfam00072 394221005910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221005911 active site 394221005912 phosphorylation site [posttranslational modification] 394221005913 intermolecular recognition site; other site 394221005914 dimerization interface [polypeptide binding]; other site 394221005915 Response regulator receiver domain; Region: Response_reg; pfam00072 394221005916 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221005917 active site 394221005918 phosphorylation site [posttranslational modification] 394221005919 intermolecular recognition site; other site 394221005920 dimerization interface [polypeptide binding]; other site 394221005921 excinuclease ABC subunit B; Provisional; Region: PRK05298 394221005922 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394221005923 ATP binding site [chemical binding]; other site 394221005924 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394221005925 nucleotide binding region [chemical binding]; other site 394221005926 ATP-binding site [chemical binding]; other site 394221005927 Ultra-violet resistance protein B; Region: UvrB; pfam12344 394221005928 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 394221005929 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 394221005930 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 394221005931 cofactor binding site; other site 394221005932 DNA binding site [nucleotide binding] 394221005933 substrate interaction site [chemical binding]; other site 394221005934 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 394221005935 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 394221005936 ParA-like protein; Provisional; Region: PHA02518 394221005937 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394221005938 P-loop; other site 394221005939 Magnesium ion binding site [ion binding]; other site 394221005940 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221005941 S-adenosylmethionine binding site [chemical binding]; other site 394221005942 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 394221005943 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 394221005944 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 394221005945 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394221005946 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394221005947 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 394221005948 N-terminal domain interface [polypeptide binding]; other site 394221005949 dimer interface [polypeptide binding]; other site 394221005950 substrate binding pocket (H-site) [chemical binding]; other site 394221005951 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 394221005952 pyruvate phosphate dikinase; Provisional; Region: PRK09279 394221005953 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 394221005954 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 394221005955 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 394221005956 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 394221005957 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 394221005958 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 394221005959 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 394221005960 dimer interface [polypeptide binding]; other site 394221005961 motif 1; other site 394221005962 active site 394221005963 motif 2; other site 394221005964 motif 3; other site 394221005965 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 394221005966 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 394221005967 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 394221005968 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 394221005969 substrate binding pocket [chemical binding]; other site 394221005970 chain length determination region; other site 394221005971 substrate-Mg2+ binding site; other site 394221005972 catalytic residues [active] 394221005973 aspartate-rich region 1; other site 394221005974 active site lid residues [active] 394221005975 aspartate-rich region 2; other site 394221005976 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 394221005977 Mg++ binding site [ion binding]; other site 394221005978 putative catalytic motif [active] 394221005979 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 394221005980 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 394221005981 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 394221005982 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221005983 binding surface 394221005984 TPR motif; other site 394221005985 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221005986 binding surface 394221005987 TPR motif; other site 394221005988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221005989 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 394221005990 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 394221005991 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 394221005992 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 394221005993 Fe-S cluster binding site [ion binding]; other site 394221005994 active site 394221005995 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 394221005996 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 394221005997 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 394221005998 PAS domain S-box; Region: sensory_box; TIGR00229 394221005999 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 394221006000 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394221006001 metal binding site [ion binding]; metal-binding site 394221006002 active site 394221006003 I-site; other site 394221006004 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394221006005 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 394221006006 RNA/DNA hybrid binding site [nucleotide binding]; other site 394221006007 active site 394221006008 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 394221006009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221006010 two component system sensor kinase SsrA; Provisional; Region: PRK15347 394221006011 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221006012 dimer interface [polypeptide binding]; other site 394221006013 phosphorylation site [posttranslational modification] 394221006014 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221006015 ATP binding site [chemical binding]; other site 394221006016 Mg2+ binding site [ion binding]; other site 394221006017 G-X-G motif; other site 394221006018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221006019 active site 394221006020 phosphorylation site [posttranslational modification] 394221006021 intermolecular recognition site; other site 394221006022 dimerization interface [polypeptide binding]; other site 394221006023 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 394221006024 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 394221006025 minor groove reading motif; other site 394221006026 helix-hairpin-helix signature motif; other site 394221006027 substrate binding pocket [chemical binding]; other site 394221006028 active site 394221006029 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 394221006030 DNA binding and oxoG recognition site [nucleotide binding] 394221006031 Protein of unknown function (DUF721); Region: DUF721; cl02324 394221006032 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394221006033 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394221006034 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 394221006035 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 394221006036 Walker A/P-loop; other site 394221006037 ATP binding site [chemical binding]; other site 394221006038 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 394221006039 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 394221006040 ABC transporter signature motif; other site 394221006041 Walker B; other site 394221006042 D-loop; other site 394221006043 H-loop/switch region; other site 394221006044 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 394221006045 ATP synthase A chain; Region: ATP-synt_A; cl00413 394221006046 ATP synthase subunit C; Region: ATP-synt_C; cl00466 394221006047 Plant ATP synthase F0; Region: YMF19; cl07975 394221006048 Plant ATP synthase F0; Region: YMF19; cl07975 394221006049 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 394221006050 Cupin domain; Region: Cupin_2; cl09118 394221006051 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394221006052 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394221006053 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 394221006054 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 394221006055 tetramer interface [polypeptide binding]; other site 394221006056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221006057 catalytic residue [active] 394221006058 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 394221006059 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 394221006060 tetramer interface [polypeptide binding]; other site 394221006061 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221006062 catalytic residue [active] 394221006063 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 394221006064 lipoyl attachment site [posttranslational modification]; other site 394221006065 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 394221006066 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 394221006067 LabA_like proteins; Region: LabA_like; cd06167 394221006068 putative metal binding site [ion binding]; other site 394221006069 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 394221006070 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 394221006071 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 394221006072 active site 394221006073 HIGH motif; other site 394221006074 nucleotide binding site [chemical binding]; other site 394221006075 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 394221006076 KMSK motif region; other site 394221006077 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 394221006078 tRNA binding surface [nucleotide binding]; other site 394221006079 anticodon binding site; other site 394221006080 LytB protein; Region: LYTB; cl00507 394221006081 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 394221006082 Protein of unknown function (DUF419); Region: DUF419; cl15265 394221006083 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 394221006084 RNA/DNA hybrid binding site [nucleotide binding]; other site 394221006085 active site 394221006086 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 394221006087 GAF domain; Region: GAF; cl15785 394221006088 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221006089 PAS domain; Region: PAS_9; pfam13426 394221006090 putative active site [active] 394221006091 heme pocket [chemical binding]; other site 394221006092 PAS domain; Region: PAS_9; pfam13426 394221006093 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221006094 putative active site [active] 394221006095 heme pocket [chemical binding]; other site 394221006096 PAS domain; Region: PAS_9; pfam13426 394221006097 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221006098 PAS fold; Region: PAS_3; pfam08447 394221006099 putative active site [active] 394221006100 heme pocket [chemical binding]; other site 394221006101 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221006102 dimer interface [polypeptide binding]; other site 394221006103 phosphorylation site [posttranslational modification] 394221006104 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221006105 ATP binding site [chemical binding]; other site 394221006106 Mg2+ binding site [ion binding]; other site 394221006107 G-X-G motif; other site 394221006108 Response regulator receiver domain; Region: Response_reg; pfam00072 394221006109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221006110 active site 394221006111 phosphorylation site [posttranslational modification] 394221006112 intermolecular recognition site; other site 394221006113 dimerization interface [polypeptide binding]; other site 394221006114 Gram-negative bacterial tonB protein; Region: TonB; cl10048 394221006115 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 394221006116 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 394221006117 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 394221006118 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 394221006119 catalytic triad [active] 394221006120 dimer interface [polypeptide binding]; other site 394221006121 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 394221006122 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 394221006123 CoenzymeA binding site [chemical binding]; other site 394221006124 subunit interaction site [polypeptide binding]; other site 394221006125 PHB binding site; other site 394221006126 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394221006127 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394221006128 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221006129 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 394221006130 Protein of unknown function (DUF983); Region: DUF983; cl02211 394221006131 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 394221006132 Subunit III/VIIa interface [polypeptide binding]; other site 394221006133 Phospholipid binding site [chemical binding]; other site 394221006134 Subunit I/III interface [polypeptide binding]; other site 394221006135 Subunit III/VIb interface [polypeptide binding]; other site 394221006136 Subunit III/VIa interface; other site 394221006137 Subunit III/Vb interface [polypeptide binding]; other site 394221006138 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 394221006139 UbiA prenyltransferase family; Region: UbiA; cl00337 394221006140 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 394221006141 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 394221006142 Subunit I/III interface [polypeptide binding]; other site 394221006143 D-pathway; other site 394221006144 Subunit I/VIIc interface [polypeptide binding]; other site 394221006145 Subunit I/IV interface [polypeptide binding]; other site 394221006146 Subunit I/II interface [polypeptide binding]; other site 394221006147 Low-spin heme (heme a) binding site [chemical binding]; other site 394221006148 Subunit I/VIIa interface [polypeptide binding]; other site 394221006149 Subunit I/VIa interface [polypeptide binding]; other site 394221006150 Dimer interface; other site 394221006151 Putative water exit pathway; other site 394221006152 Binuclear center (heme a3/CuB) [ion binding]; other site 394221006153 K-pathway; other site 394221006154 Subunit I/Vb interface [polypeptide binding]; other site 394221006155 Putative proton exit pathway; other site 394221006156 Subunit I/VIb interface; other site 394221006157 Subunit I/VIc interface [polypeptide binding]; other site 394221006158 Electron transfer pathway; other site 394221006159 Subunit I/VIIIb interface [polypeptide binding]; other site 394221006160 Subunit I/VIIb interface [polypeptide binding]; other site 394221006161 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 394221006162 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 394221006163 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 394221006164 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221006165 binding surface 394221006166 TPR motif; other site 394221006167 TPR repeat; Region: TPR_11; pfam13414 394221006168 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 394221006169 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 394221006170 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 394221006171 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221006172 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 394221006173 catalytic motif [active] 394221006174 Catalytic residue [active] 394221006175 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 394221006176 catalytic motif [active] 394221006177 Catalytic residue [active] 394221006178 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 394221006179 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 394221006180 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 394221006181 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 394221006182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 394221006183 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 394221006184 UbiA prenyltransferase family; Region: UbiA; cl00337 394221006185 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 394221006186 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 394221006187 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 394221006188 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 394221006189 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 394221006190 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 394221006191 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 394221006192 dimer interface [polypeptide binding]; other site 394221006193 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221006194 ligand binding site [chemical binding]; other site 394221006195 Predicted methyltransferase [General function prediction only]; Region: COG3897 394221006196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221006197 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394221006198 Helix-turn-helix domains; Region: HTH; cl00088 394221006199 enoyl-CoA hydratase; Provisional; Region: PRK06688 394221006200 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394221006201 substrate binding site [chemical binding]; other site 394221006202 oxyanion hole (OAH) forming residues; other site 394221006203 trimer interface [polypeptide binding]; other site 394221006204 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 394221006205 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221006206 Sensors of blue-light using FAD; Region: BLUF; cl04855 394221006207 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 394221006208 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 394221006209 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 394221006210 inhibitor binding site; inhibition site 394221006211 catalytic motif [active] 394221006212 Catalytic residue [active] 394221006213 Active site flap [active] 394221006214 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 394221006215 protein binding site [polypeptide binding]; other site 394221006216 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394221006217 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 394221006218 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394221006219 catalytic residue [active] 394221006220 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394221006221 ArsC family; Region: ArsC; pfam03960 394221006222 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 394221006223 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 394221006224 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 394221006225 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 394221006226 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 394221006227 GAF domain; Region: GAF; cl15785 394221006228 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 394221006229 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 394221006230 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 394221006231 aspartate kinase; Reviewed; Region: PRK06635 394221006232 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 394221006233 putative nucleotide binding site [chemical binding]; other site 394221006234 putative catalytic residues [active] 394221006235 putative Mg ion binding site [ion binding]; other site 394221006236 putative aspartate binding site [chemical binding]; other site 394221006237 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 394221006238 putative allosteric regulatory site; other site 394221006239 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 394221006240 putative allosteric regulatory residue; other site 394221006241 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 394221006242 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221006243 S-adenosylmethionine binding site [chemical binding]; other site 394221006244 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 394221006245 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 394221006246 Predicted amidohydrolase [General function prediction only]; Region: COG0388 394221006247 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 394221006248 putative active site [active] 394221006249 catalytic triad [active] 394221006250 dimer interface [polypeptide binding]; other site 394221006251 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 394221006252 GSH binding site [chemical binding]; other site 394221006253 catalytic residues [active] 394221006254 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 394221006255 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394221006256 active site 394221006257 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 394221006258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221006259 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 394221006260 active site 394221006261 8-oxo-dGMP binding site [chemical binding]; other site 394221006262 nudix motif; other site 394221006263 metal binding site [ion binding]; metal-binding site 394221006264 PPIC-type PPIASE domain; Region: Rotamase; cl08278 394221006265 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 394221006266 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 394221006267 SEC-C motif; Region: SEC-C; pfam02810 394221006268 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221006269 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 394221006270 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 394221006271 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 394221006272 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394221006273 DNA binding site [nucleotide binding] 394221006274 Int/Topo IB signature motif; other site 394221006275 active site 394221006276 shikimate kinase; Provisional; Region: PRK13946 394221006277 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 394221006278 ADP binding site [chemical binding]; other site 394221006279 magnesium binding site [ion binding]; other site 394221006280 putative shikimate binding site; other site 394221006281 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 394221006282 active site 394221006283 dimer interface [polypeptide binding]; other site 394221006284 metal binding site [ion binding]; metal-binding site 394221006285 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 394221006286 Domain of unknown function DUF21; Region: DUF21; pfam01595 394221006287 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 394221006288 Transporter associated domain; Region: CorC_HlyC; cl08393 394221006289 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 394221006290 BolA-like protein; Region: BolA; cl00386 394221006291 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 394221006292 HSP70 interaction site [polypeptide binding]; other site 394221006293 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 394221006294 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 394221006295 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221006296 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 394221006297 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 394221006298 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 394221006299 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 394221006300 Outer membrane efflux protein; Region: OEP; pfam02321 394221006301 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 394221006302 putative homotetramer interface [polypeptide binding]; other site 394221006303 putative homodimer interface [polypeptide binding]; other site 394221006304 putative allosteric switch controlling residues; other site 394221006305 putative metal binding site [ion binding]; other site 394221006306 putative homodimer-homodimer interface [polypeptide binding]; other site 394221006307 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 394221006308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221006309 flagellin; Reviewed; Region: PRK12687 394221006310 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 394221006311 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 394221006312 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 394221006313 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 394221006314 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 394221006315 metal ion-dependent adhesion site (MIDAS); other site 394221006316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 394221006317 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 394221006318 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 394221006319 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 394221006320 active site 394221006321 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 394221006322 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 394221006323 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221006324 ATP binding site [chemical binding]; other site 394221006325 putative Mg++ binding site [ion binding]; other site 394221006326 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394221006327 nucleotide binding region [chemical binding]; other site 394221006328 ATP-binding site [chemical binding]; other site 394221006329 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394221006330 RNA binding surface [nucleotide binding]; other site 394221006331 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 394221006332 putative metal binding site [ion binding]; other site 394221006333 Ferredoxin [Energy production and conversion]; Region: COG1146 394221006334 4Fe-4S binding domain; Region: Fer4; cl02805 394221006335 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 394221006336 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 394221006337 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 394221006338 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394221006339 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394221006340 DNA binding residues [nucleotide binding] 394221006341 Staphylococcal nuclease homologues; Region: SNc; smart00318 394221006342 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 394221006343 Catalytic site; other site 394221006344 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394221006345 dimer interface [polypeptide binding]; other site 394221006346 putative CheW interface [polypeptide binding]; other site 394221006347 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 394221006348 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394221006349 Tetratricopeptide repeat; Region: TPR_12; pfam13424 394221006350 Tetratricopeptide repeat; Region: TPR_12; pfam13424 394221006351 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221006352 binding surface 394221006353 TPR motif; other site 394221006354 Tetratricopeptide repeat; Region: TPR_12; pfam13424 394221006355 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394221006356 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 394221006357 putative active site [active] 394221006358 catalytic triad [active] 394221006359 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 394221006360 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 394221006361 putative NAD(P) binding site [chemical binding]; other site 394221006362 putative substrate binding site [chemical binding]; other site 394221006363 catalytic Zn binding site [ion binding]; other site 394221006364 structural Zn binding site [ion binding]; other site 394221006365 dimer interface [polypeptide binding]; other site 394221006366 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 394221006367 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 394221006368 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 394221006369 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 394221006370 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221006371 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 394221006372 substrate binding pocket [chemical binding]; other site 394221006373 ATP-dependent DNA ligase; Reviewed; Region: PRK09632 394221006374 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 394221006375 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 394221006376 AMP-binding enzyme; Region: AMP-binding; cl15778 394221006377 Protein of unknown function, DUF417; Region: DUF417; cl01162 394221006378 Protein of unknown function, DUF417; Region: DUF417; cl01162 394221006379 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 394221006380 active site 394221006381 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 394221006382 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 394221006383 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 394221006384 Fic family protein [Function unknown]; Region: COG3177 394221006385 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 394221006386 Fic/DOC family; Region: Fic; cl00960 394221006387 Helix-turn-helix domain; Region: HTH_18; pfam12833 394221006388 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 394221006389 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 394221006390 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 394221006391 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221006392 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 394221006393 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221006394 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 394221006395 Outer membrane efflux protein; Region: OEP; pfam02321 394221006396 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 394221006397 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 394221006398 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 394221006399 DNA binding residues [nucleotide binding] 394221006400 dimer interface [polypeptide binding]; other site 394221006401 putative metal binding site [ion binding]; other site 394221006402 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 394221006403 DNA binding residues [nucleotide binding] 394221006404 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 394221006405 dimer interface [polypeptide binding]; other site 394221006406 putative metal binding site [ion binding]; other site 394221006407 MerT mercuric transport protein; Region: MerT; cl03578 394221006408 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 394221006409 metal-binding site [ion binding] 394221006410 mercuric reductase; Region: MerA; TIGR02053 394221006411 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394221006412 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394221006413 alkylmercury lyase; Provisional; Region: PRK13239 394221006414 Helix-turn-helix domain of alkylmercury lyase; Region: HTH_15; pfam12324 394221006415 Alkylmercury lyase; Region: MerB; pfam03243 394221006416 Phospholipid methyltransferase; Region: PEMT; cl00763 394221006417 Cation efflux family; Region: Cation_efflux; cl00316 394221006418 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 394221006419 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 394221006420 DNA binding residues [nucleotide binding] 394221006421 dimer interface [polypeptide binding]; other site 394221006422 putative metal binding site [ion binding]; other site 394221006423 lipoprotein signal peptidase; Provisional; Region: PRK14787 394221006424 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 394221006425 Domain of unknown function DUF302; Region: DUF302; cl01364 394221006426 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 394221006427 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 394221006428 pyruvate carboxylase subunit B; Validated; Region: PRK09282 394221006429 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221006430 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 394221006431 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221006432 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 394221006433 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 394221006434 DNA binding site [nucleotide binding] 394221006435 Int/Topo IB signature motif; other site 394221006436 active site 394221006437 catalytic residues [active] 394221006438 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221006439 Walker A motif; other site 394221006440 ATP binding site [chemical binding]; other site 394221006441 Walker B motif; other site 394221006442 Antirestriction protein (ArdA); Region: ArdA; cl01953 394221006443 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394221006444 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394221006445 DNA binding site [nucleotide binding] 394221006446 Int/Topo IB signature motif; other site 394221006447 active site 394221006448 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 394221006449 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 394221006450 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 394221006451 diiron binding motif [ion binding]; other site 394221006452 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 394221006453 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 394221006454 active site 394221006455 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 394221006456 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221006457 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 394221006458 GIY-YIG motif/motif A; other site 394221006459 putative active site [active] 394221006460 putative metal binding site [ion binding]; other site 394221006461 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 394221006462 active site 394221006463 HIGH motif; other site 394221006464 nucleotide binding site [chemical binding]; other site 394221006465 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 394221006466 active site 394221006467 KMSKS motif; other site 394221006468 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 394221006469 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 394221006470 [2Fe-2S] cluster binding site [ion binding]; other site 394221006471 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 394221006472 hydrophobic ligand binding site; other site 394221006473 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221006474 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 394221006475 YceI-like domain; Region: YceI; cl01001 394221006476 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221006477 Helix-turn-helix domains; Region: HTH; cl00088 394221006478 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 394221006479 Ligand binding site [chemical binding]; other site 394221006480 Electron transfer flavoprotein domain; Region: ETF; pfam01012 394221006481 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 394221006482 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 394221006483 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 394221006484 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221006485 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221006486 Amidohydrolase; Region: Amidohydro_4; pfam13147 394221006487 active site 394221006488 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394221006489 3-phytase (myo-inositol-hexaphosphate 3-phosphohydrolase) [Lipid metabolism]; Region: Phy; COG4247 394221006490 Phytase; Region: Phytase; pfam02333 394221006491 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 394221006492 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 394221006493 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221006494 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221006495 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 394221006496 catalytic residues [active] 394221006497 argininosuccinate lyase; Provisional; Region: PRK00855 394221006498 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 394221006499 active sites [active] 394221006500 tetramer interface [polypeptide binding]; other site 394221006501 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 394221006502 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 394221006503 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 394221006504 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 394221006505 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 394221006506 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 394221006507 Walker A/P-loop; other site 394221006508 ATP binding site [chemical binding]; other site 394221006509 Q-loop/lid; other site 394221006510 ABC transporter signature motif; other site 394221006511 Walker B; other site 394221006512 D-loop; other site 394221006513 H-loop/switch region; other site 394221006514 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 394221006515 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 394221006516 putative active site [active] 394221006517 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 394221006518 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 394221006519 putative acyl-acceptor binding pocket; other site 394221006520 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 394221006521 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 394221006522 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 394221006523 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394221006524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221006525 homodimer interface [polypeptide binding]; other site 394221006526 catalytic residue [active] 394221006527 hypothetical protein; Provisional; Region: PRK08317 394221006528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221006529 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 394221006530 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 394221006531 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 394221006532 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 394221006533 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 394221006534 NAD(P) binding site [chemical binding]; other site 394221006535 homotetramer interface [polypeptide binding]; other site 394221006536 homodimer interface [polypeptide binding]; other site 394221006537 active site 394221006538 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 394221006539 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 394221006540 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 394221006541 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 394221006542 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 394221006543 Ligand binding site; other site 394221006544 Putative Catalytic site; other site 394221006545 DXD motif; other site 394221006546 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 394221006547 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 394221006548 active site 394221006549 catalytic residues [active] 394221006550 metal binding site [ion binding]; metal-binding site 394221006551 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394221006552 O-Antigen ligase; Region: Wzy_C; cl04850 394221006553 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 394221006554 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 394221006555 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 394221006556 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 394221006557 active site 394221006558 dimer interface [polypeptide binding]; other site 394221006559 motif 1; other site 394221006560 motif 2; other site 394221006561 motif 3; other site 394221006562 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 394221006563 anticodon binding site; other site 394221006564 Haemolytic domain; Region: Haemolytic; cl00506 394221006565 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 394221006566 trimerization site [polypeptide binding]; other site 394221006567 active site 394221006568 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 394221006569 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 394221006570 active site 394221006571 HIGH motif; other site 394221006572 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 394221006573 KMSKS motif; other site 394221006574 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 394221006575 tRNA binding surface [nucleotide binding]; other site 394221006576 anticodon binding site; other site 394221006577 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 394221006578 GTP cyclohydrolase I; Provisional; Region: PLN03044 394221006579 active site 394221006580 SCP-2 sterol transfer family; Region: SCP2; cl01225 394221006581 Peptidase family U32; Region: Peptidase_U32; cl03113 394221006582 Peptidase family U32; Region: Peptidase_U32; cl03113 394221006583 Chorismate mutase type II; Region: CM_2; cl00693 394221006584 PhoD-like phosphatase; Region: PhoD; pfam09423 394221006585 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 394221006586 putative active site [active] 394221006587 putative metal binding site [ion binding]; other site 394221006588 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 394221006589 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 394221006590 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394221006591 N-terminal plug; other site 394221006592 ligand-binding site [chemical binding]; other site 394221006593 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 394221006594 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394221006595 RNA binding surface [nucleotide binding]; other site 394221006596 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 394221006597 active site 394221006598 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 394221006599 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 394221006600 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 394221006601 active site 394221006602 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 394221006603 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 394221006604 C-terminal domain interface [polypeptide binding]; other site 394221006605 GSH binding site (G-site) [chemical binding]; other site 394221006606 dimer interface [polypeptide binding]; other site 394221006607 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 394221006608 N-terminal domain interface [polypeptide binding]; other site 394221006609 dimer interface [polypeptide binding]; other site 394221006610 substrate binding pocket (H-site) [chemical binding]; other site 394221006611 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 394221006612 dihydropteroate synthase; Region: DHPS; TIGR01496 394221006613 substrate binding pocket [chemical binding]; other site 394221006614 dimer interface [polypeptide binding]; other site 394221006615 inhibitor binding site; inhibition site 394221006616 FtsH Extracellular; Region: FtsH_ext; pfam06480 394221006617 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 394221006618 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221006619 Walker A motif; other site 394221006620 ATP binding site [chemical binding]; other site 394221006621 Walker B motif; other site 394221006622 arginine finger; other site 394221006623 Peptidase family M41; Region: Peptidase_M41; pfam01434 394221006624 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 394221006625 Ligand Binding Site [chemical binding]; other site 394221006626 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 394221006627 Tetratricopeptide repeat; Region: TPR_6; pfam13174 394221006628 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394221006629 ligand binding site [chemical binding]; other site 394221006630 translocation protein TolB; Provisional; Region: tolB; PRK05137 394221006631 TolB amino-terminal domain; Region: TolB_N; cl00639 394221006632 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 394221006633 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 394221006634 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 394221006635 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 394221006636 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 394221006637 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 394221006638 active site 394221006639 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 394221006640 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221006641 Walker A motif; other site 394221006642 ATP binding site [chemical binding]; other site 394221006643 Walker B motif; other site 394221006644 arginine finger; other site 394221006645 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 394221006646 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 394221006647 RuvA N terminal domain; Region: RuvA_N; pfam01330 394221006648 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 394221006649 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 394221006650 active site 394221006651 putative DNA-binding cleft [nucleotide binding]; other site 394221006652 dimer interface [polypeptide binding]; other site 394221006653 Cupin superfamily protein; Region: Cupin_4; pfam08007 394221006654 JmjC domain, hydroxylase; Region: JmjC; cl15814 394221006655 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 394221006656 Strictosidine synthase; Region: Str_synth; pfam03088 394221006657 transketolase; Reviewed; Region: PRK05899 394221006658 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 394221006659 TPP-binding site [chemical binding]; other site 394221006660 dimer interface [polypeptide binding]; other site 394221006661 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 394221006662 PYR/PP interface [polypeptide binding]; other site 394221006663 dimer interface [polypeptide binding]; other site 394221006664 TPP binding site [chemical binding]; other site 394221006665 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394221006666 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 394221006667 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 394221006668 active site 394221006669 dimer interface [polypeptide binding]; other site 394221006670 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 394221006671 dimer interface [polypeptide binding]; other site 394221006672 active site 394221006673 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 394221006674 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 394221006675 dimerization interface [polypeptide binding]; other site 394221006676 putative active cleft [active] 394221006677 Transcriptional regulator; Region: Transcrip_reg; cl00361 394221006678 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 394221006679 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 394221006680 Substrate binding site; other site 394221006681 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 394221006682 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 394221006683 putative active site [active] 394221006684 metal binding site [ion binding]; metal-binding site 394221006685 homodimer binding site [polypeptide binding]; other site 394221006686 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 394221006687 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 394221006688 substrate binding pocket [chemical binding]; other site 394221006689 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 394221006690 B12 binding site [chemical binding]; other site 394221006691 cobalt ligand [ion binding]; other site 394221006692 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 394221006693 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 394221006694 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 394221006695 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 394221006696 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 394221006697 FAD binding site [chemical binding]; other site 394221006698 S-adenosylmethionine synthetase; Validated; Region: PRK05250 394221006699 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 394221006700 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 394221006701 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 394221006702 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 394221006703 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 394221006704 oligomerization interface [polypeptide binding]; other site 394221006705 active site 394221006706 NAD+ binding site [chemical binding]; other site 394221006707 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 394221006708 Cell division protein ZapA; Region: ZapA; cl01146 394221006709 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 394221006710 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 394221006711 Probable Catalytic site; other site 394221006712 metal-binding site 394221006713 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221006714 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221006715 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221006716 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 394221006717 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 394221006718 active site 394221006719 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 394221006720 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 394221006721 CysD dimerization site [polypeptide binding]; other site 394221006722 G1 box; other site 394221006723 putative GEF interaction site [polypeptide binding]; other site 394221006724 GTP/Mg2+ binding site [chemical binding]; other site 394221006725 Switch I region; other site 394221006726 G2 box; other site 394221006727 G3 box; other site 394221006728 Switch II region; other site 394221006729 G4 box; other site 394221006730 G5 box; other site 394221006731 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 394221006732 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 394221006733 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 394221006734 ligand-binding site [chemical binding]; other site 394221006735 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 394221006736 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 394221006737 Active Sites [active] 394221006738 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 394221006739 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 394221006740 inhibitor-cofactor binding pocket; inhibition site 394221006741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221006742 catalytic residue [active] 394221006743 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 394221006744 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 394221006745 glutaminase active site [active] 394221006746 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 394221006747 dimer interface [polypeptide binding]; other site 394221006748 active site 394221006749 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 394221006750 dimer interface [polypeptide binding]; other site 394221006751 active site 394221006752 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 394221006753 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 394221006754 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 394221006755 NADP binding site [chemical binding]; other site 394221006756 active site 394221006757 putative substrate binding site [chemical binding]; other site 394221006758 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 394221006759 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 394221006760 NAD binding site [chemical binding]; other site 394221006761 substrate binding site [chemical binding]; other site 394221006762 homodimer interface [polypeptide binding]; other site 394221006763 active site 394221006764 Cupin domain; Region: Cupin_2; cl09118 394221006765 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 394221006766 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 394221006767 substrate binding site; other site 394221006768 tetramer interface; other site 394221006769 Integrase core domain; Region: rve_3; cl15866 394221006770 Helix-turn-helix domains; Region: HTH; cl00088 394221006771 Integrase core domain; Region: rve; cl01316 394221006772 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 394221006773 active site 394221006774 catalytic site [active] 394221006775 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 394221006776 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394221006777 motif II; other site 394221006778 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 394221006779 Ligand binding site; other site 394221006780 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 394221006781 Ligand binding site; other site 394221006782 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394221006783 active site 394221006784 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 394221006785 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221006786 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 394221006787 putative substrate binding region [chemical binding]; other site 394221006788 Helix-turn-helix domains; Region: HTH; cl00088 394221006789 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 394221006790 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 394221006791 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 394221006792 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 394221006793 Probable Catalytic site; other site 394221006794 metal-binding site 394221006795 Rhamnan synthesis protein F; Region: RgpF; cl01529 394221006796 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 394221006797 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 394221006798 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 394221006799 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 394221006800 Walker A/P-loop; other site 394221006801 ATP binding site [chemical binding]; other site 394221006802 Q-loop/lid; other site 394221006803 ABC transporter signature motif; other site 394221006804 Walker B; other site 394221006805 D-loop; other site 394221006806 H-loop/switch region; other site 394221006807 ABC-2 type transporter; Region: ABC2_membrane; cl11417 394221006808 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394221006809 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 394221006810 active site 394221006811 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 394221006812 Helix-turn-helix domains; Region: HTH; cl00088 394221006813 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 394221006814 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 394221006815 active site 394221006816 substrate binding site [chemical binding]; other site 394221006817 metal binding site [ion binding]; metal-binding site 394221006818 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 394221006819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221006820 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 394221006821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221006822 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 394221006823 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 394221006824 active site 394221006825 substrate binding site [chemical binding]; other site 394221006826 metal binding site [ion binding]; metal-binding site 394221006827 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 394221006828 active site 394221006829 tetramer interface; other site 394221006830 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394221006831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221006832 NAD(P) binding site [chemical binding]; other site 394221006833 active site 394221006834 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 394221006835 Ca2+ binding site [ion binding]; other site 394221006836 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 394221006837 Ca2+ binding site [ion binding]; other site 394221006838 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 394221006839 Ca2+ binding site [ion binding]; other site 394221006840 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 394221006841 Ca2+ binding site [ion binding]; other site 394221006842 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 394221006843 Ca2+ binding site [ion binding]; other site 394221006844 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 394221006845 Ca2+ binding site [ion binding]; other site 394221006846 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 394221006847 Ca2+ binding site [ion binding]; other site 394221006848 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 394221006849 Ca2+ binding site [ion binding]; other site 394221006850 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 394221006851 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 394221006852 active site 394221006853 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394221006854 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 394221006855 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 394221006856 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221006857 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 394221006858 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221006859 Walker A/P-loop; other site 394221006860 ATP binding site [chemical binding]; other site 394221006861 Q-loop/lid; other site 394221006862 ABC transporter signature motif; other site 394221006863 Walker B; other site 394221006864 D-loop; other site 394221006865 H-loop/switch region; other site 394221006866 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 394221006867 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 394221006868 putative active site [active] 394221006869 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 394221006870 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 394221006871 catalytic core [active] 394221006872 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 394221006873 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 394221006874 catalytic motif [active] 394221006875 Zn binding site [ion binding]; other site 394221006876 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 394221006877 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221006878 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221006879 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 394221006880 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221006881 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221006882 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394221006883 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 394221006884 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 394221006885 putative dimer interface [polypeptide binding]; other site 394221006886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221006887 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 394221006888 active site 394221006889 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 394221006890 N-formylglutamate amidohydrolase; Region: FGase; cl01522 394221006891 Response regulator receiver domain; Region: Response_reg; pfam00072 394221006892 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221006893 active site 394221006894 phosphorylation site [posttranslational modification] 394221006895 intermolecular recognition site; other site 394221006896 dimerization interface [polypeptide binding]; other site 394221006897 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221006898 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221006899 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 394221006900 Domain of unknown function DUF59; Region: DUF59; cl00941 394221006901 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 394221006902 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 394221006903 Walker A motif; other site 394221006904 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 394221006905 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221006906 Walker A/P-loop; other site 394221006907 ATP binding site [chemical binding]; other site 394221006908 Q-loop/lid; other site 394221006909 ABC transporter signature motif; other site 394221006910 Walker B; other site 394221006911 D-loop; other site 394221006912 H-loop/switch region; other site 394221006913 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 394221006914 ABC-ATPase subunit interface; other site 394221006915 dimer interface [polypeptide binding]; other site 394221006916 putative PBP binding regions; other site 394221006917 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 394221006918 intersubunit interface [polypeptide binding]; other site 394221006919 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 394221006920 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394221006921 N-terminal plug; other site 394221006922 ligand-binding site [chemical binding]; other site 394221006923 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 394221006924 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 394221006925 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 394221006926 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221006927 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 394221006928 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221006929 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394221006930 putative substrate translocation pore; other site 394221006931 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 394221006932 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394221006933 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221006934 dimer interface [polypeptide binding]; other site 394221006935 phosphorylation site [posttranslational modification] 394221006936 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221006937 ATP binding site [chemical binding]; other site 394221006938 Mg2+ binding site [ion binding]; other site 394221006939 G-X-G motif; other site 394221006940 Response regulator receiver domain; Region: Response_reg; pfam00072 394221006941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221006942 active site 394221006943 phosphorylation site [posttranslational modification] 394221006944 intermolecular recognition site; other site 394221006945 dimerization interface [polypeptide binding]; other site 394221006946 Transglycosylase SLT domain; Region: SLT_2; pfam13406 394221006947 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 394221006948 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 394221006949 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 394221006950 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 394221006951 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 394221006952 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 394221006953 putative active site [active] 394221006954 metal binding site [ion binding]; metal-binding site 394221006955 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 394221006956 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 394221006957 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 394221006958 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394221006959 motif II; other site 394221006960 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 394221006961 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394221006962 active site 394221006963 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 394221006964 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394221006965 active site 394221006966 MASE1; Region: MASE1; pfam05231 394221006967 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221006968 PAS domain; Region: PAS_9; pfam13426 394221006969 putative active site [active] 394221006970 heme pocket [chemical binding]; other site 394221006971 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394221006972 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221006973 dimer interface [polypeptide binding]; other site 394221006974 phosphorylation site [posttranslational modification] 394221006975 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221006976 ATP binding site [chemical binding]; other site 394221006977 Mg2+ binding site [ion binding]; other site 394221006978 G-X-G motif; other site 394221006979 Response regulator receiver domain; Region: Response_reg; pfam00072 394221006980 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221006981 active site 394221006982 phosphorylation site [posttranslational modification] 394221006983 intermolecular recognition site; other site 394221006984 dimerization interface [polypeptide binding]; other site 394221006985 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 394221006986 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394221006987 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221006988 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 394221006989 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 394221006990 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 394221006991 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221006992 active site 394221006993 phosphorylation site [posttranslational modification] 394221006994 intermolecular recognition site; other site 394221006995 dimerization interface [polypeptide binding]; other site 394221006996 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221006997 Walker A motif; other site 394221006998 ATP binding site [chemical binding]; other site 394221006999 Walker B motif; other site 394221007000 arginine finger; other site 394221007001 Helix-turn-helix domains; Region: HTH; cl00088 394221007002 CAAX protease self-immunity; Region: Abi; cl00558 394221007003 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394221007004 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394221007005 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221007006 active site 394221007007 phosphorylation site [posttranslational modification] 394221007008 intermolecular recognition site; other site 394221007009 dimerization interface [polypeptide binding]; other site 394221007010 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394221007011 DNA binding residues [nucleotide binding] 394221007012 dimerization interface [polypeptide binding]; other site 394221007013 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 394221007014 Histidine kinase; Region: HisKA_3; pfam07730 394221007015 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 394221007016 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 394221007017 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 394221007018 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007019 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 394221007020 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 394221007021 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 394221007022 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 394221007023 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221007024 S-adenosylmethionine binding site [chemical binding]; other site 394221007025 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 394221007026 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 394221007027 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 394221007028 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 394221007029 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 394221007030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221007031 Walker A/P-loop; other site 394221007032 ATP binding site [chemical binding]; other site 394221007033 Q-loop/lid; other site 394221007034 ABC transporter signature motif; other site 394221007035 Walker B; other site 394221007036 D-loop; other site 394221007037 H-loop/switch region; other site 394221007038 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 394221007039 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 394221007040 Helix-turn-helix domains; Region: HTH; cl00088 394221007041 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 394221007042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007043 NAD(P) binding site [chemical binding]; other site 394221007044 active site 394221007045 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 394221007046 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 394221007047 putative catalytic residue [active] 394221007048 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 394221007049 Helix-turn-helix domains; Region: HTH; cl00088 394221007050 Alternative oxidase, ferritin-like diiron-binding domain; Region: AOX; cd01053 394221007051 diiron binding motif [ion binding]; other site 394221007052 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 394221007053 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 394221007054 active site 394221007055 metal binding site [ion binding]; metal-binding site 394221007056 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 394221007057 XdhC Rossmann domain; Region: XdhC_C; pfam13478 394221007058 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221007059 AIR carboxylase; Region: AIRC; cl00310 394221007060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394221007061 metal binding site [ion binding]; metal-binding site 394221007062 active site 394221007063 I-site; other site 394221007064 Protein of unknown function (DUF465); Region: DUF465; cl01070 394221007065 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 394221007066 Flavoprotein; Region: Flavoprotein; cl08021 394221007067 Protein of unknown function (DUF465); Region: DUF465; cl01070 394221007068 TPR repeat; Region: TPR_11; pfam13414 394221007069 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221007070 binding surface 394221007071 TPR motif; other site 394221007072 TPR repeat; Region: TPR_11; pfam13414 394221007073 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 394221007074 binding surface 394221007075 TPR motif; other site 394221007076 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394221007077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007078 NAD(P) binding site [chemical binding]; other site 394221007079 active site 394221007080 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 394221007081 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 394221007082 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 394221007083 NAD(P) binding site [chemical binding]; other site 394221007084 Protein of unknown function (DUF1192); Region: DUF1192; cl11573 394221007085 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 394221007086 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221007087 non-specific DNA binding site [nucleotide binding]; other site 394221007088 salt bridge; other site 394221007089 sequence-specific DNA binding site [nucleotide binding]; other site 394221007090 PAS fold; Region: PAS; pfam00989 394221007091 Sensors of blue-light using FAD; Region: BLUF; cl04855 394221007092 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 394221007093 heme-binding site [chemical binding]; other site 394221007094 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394221007095 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394221007096 dimer interface [polypeptide binding]; other site 394221007097 putative CheW interface [polypeptide binding]; other site 394221007098 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 394221007099 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 394221007100 CcdB protein; Region: CcdB; cl03380 394221007101 hypothetical protein; Validated; Region: PRK09039 394221007102 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394221007103 ligand binding site [chemical binding]; other site 394221007104 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 394221007105 Phospholipid methyltransferase; Region: PEMT; cl00763 394221007106 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 394221007107 active site 394221007108 dimerization interface [polypeptide binding]; other site 394221007109 elongation factor P; Validated; Region: PRK00529 394221007110 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 394221007111 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 394221007112 RNA binding site [nucleotide binding]; other site 394221007113 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 394221007114 RNA binding site [nucleotide binding]; other site 394221007115 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394221007116 Sel1 repeat; Region: Sel1; cl02723 394221007117 Sel1 repeat; Region: Sel1; cl02723 394221007118 Sel1 repeat; Region: Sel1; cl02723 394221007119 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 394221007120 thiamine phosphate binding site [chemical binding]; other site 394221007121 active site 394221007122 pyrophosphate binding site [ion binding]; other site 394221007123 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 394221007124 active site 394221007125 intersubunit interface [polypeptide binding]; other site 394221007126 catalytic residue [active] 394221007127 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 394221007128 Phosphoglycerate kinase; Region: PGK; pfam00162 394221007129 substrate binding site [chemical binding]; other site 394221007130 hinge regions; other site 394221007131 ADP binding site [chemical binding]; other site 394221007132 catalytic site [active] 394221007133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007134 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 394221007135 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 394221007136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007137 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394221007138 NAD(P) binding site [chemical binding]; other site 394221007139 active site 394221007140 HipA N-terminal domain; Region: Couple_hipA; cl11853 394221007141 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 394221007142 HipA-like N-terminal domain; Region: HipA_N; pfam07805 394221007143 HipA-like C-terminal domain; Region: HipA_C; pfam07804 394221007144 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 394221007145 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 394221007146 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 394221007147 metal binding site [ion binding]; metal-binding site 394221007148 putative dimer interface [polypeptide binding]; other site 394221007149 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394221007150 TadE-like protein; Region: TadE; cl10688 394221007151 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 394221007152 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 394221007153 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 394221007154 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 394221007155 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 394221007156 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 394221007157 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 394221007158 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 394221007159 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 394221007160 Walker A/P-loop; other site 394221007161 ATP binding site [chemical binding]; other site 394221007162 Q-loop/lid; other site 394221007163 ABC transporter signature motif; other site 394221007164 Walker B; other site 394221007165 D-loop; other site 394221007166 H-loop/switch region; other site 394221007167 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394221007168 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 394221007169 Walker A/P-loop; other site 394221007170 ATP binding site [chemical binding]; other site 394221007171 Q-loop/lid; other site 394221007172 ABC transporter signature motif; other site 394221007173 Walker B; other site 394221007174 D-loop; other site 394221007175 H-loop/switch region; other site 394221007176 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394221007177 PAS domain S-box; Region: sensory_box; TIGR00229 394221007178 PAS fold; Region: PAS_3; pfam08447 394221007179 PAS fold; Region: PAS_3; pfam08447 394221007180 PAS fold; Region: PAS_3; pfam08447 394221007181 PAS fold; Region: PAS_3; pfam08447 394221007182 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221007183 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394221007184 putative active site [active] 394221007185 heme pocket [chemical binding]; other site 394221007186 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221007187 dimer interface [polypeptide binding]; other site 394221007188 phosphorylation site [posttranslational modification] 394221007189 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221007190 ATP binding site [chemical binding]; other site 394221007191 Mg2+ binding site [ion binding]; other site 394221007192 G-X-G motif; other site 394221007193 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 394221007194 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 394221007195 FtsX-like permease family; Region: FtsX; cl15850 394221007196 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 394221007197 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 394221007198 Walker A/P-loop; other site 394221007199 ATP binding site [chemical binding]; other site 394221007200 Q-loop/lid; other site 394221007201 ABC transporter signature motif; other site 394221007202 Walker B; other site 394221007203 D-loop; other site 394221007204 H-loop/switch region; other site 394221007205 macrolide transporter subunit MacA; Provisional; Region: PRK11578 394221007206 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221007207 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221007208 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394221007209 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 394221007210 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 394221007211 PhnA protein; Region: PhnA; pfam03831 394221007212 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 394221007213 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 394221007214 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 394221007215 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 394221007216 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 394221007217 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 394221007218 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 394221007219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007220 NAD(P) binding site [chemical binding]; other site 394221007221 active site 394221007222 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394221007223 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221007224 dimer interface [polypeptide binding]; other site 394221007225 phosphorylation site [posttranslational modification] 394221007226 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221007227 ATP binding site [chemical binding]; other site 394221007228 Mg2+ binding site [ion binding]; other site 394221007229 G-X-G motif; other site 394221007230 Response regulator receiver domain; Region: Response_reg; pfam00072 394221007231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221007232 active site 394221007233 phosphorylation site [posttranslational modification] 394221007234 intermolecular recognition site; other site 394221007235 dimerization interface [polypeptide binding]; other site 394221007236 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 394221007237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007238 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 394221007239 homoserine O-acetyltransferase; Provisional; Region: PRK08775 394221007240 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221007241 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 394221007242 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 394221007243 homodimer interface [polypeptide binding]; other site 394221007244 substrate-cofactor binding pocket; other site 394221007245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221007246 catalytic residue [active] 394221007247 glycerol kinase; Provisional; Region: glpK; PRK00047 394221007248 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 394221007249 N- and C-terminal domain interface [polypeptide binding]; other site 394221007250 active site 394221007251 MgATP binding site [chemical binding]; other site 394221007252 catalytic site [active] 394221007253 metal binding site [ion binding]; metal-binding site 394221007254 glycerol binding site [chemical binding]; other site 394221007255 homotetramer interface [polypeptide binding]; other site 394221007256 homodimer interface [polypeptide binding]; other site 394221007257 FBP binding site [chemical binding]; other site 394221007258 protein IIAGlc interface [polypeptide binding]; other site 394221007259 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 394221007260 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221007261 HI0933-like protein; Region: HI0933_like; pfam03486 394221007262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007264 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394221007265 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394221007266 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 394221007267 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 394221007268 ABC-2 type transporter; Region: ABC2_membrane; cl11417 394221007269 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 394221007270 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 394221007271 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 394221007272 Zn binding site [ion binding]; other site 394221007273 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 394221007274 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 394221007275 Walker A/P-loop; other site 394221007276 ATP binding site [chemical binding]; other site 394221007277 Q-loop/lid; other site 394221007278 ABC transporter signature motif; other site 394221007279 Walker B; other site 394221007280 D-loop; other site 394221007281 H-loop/switch region; other site 394221007282 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 394221007283 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 394221007284 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 394221007285 peptide chain release factor 1; Validated; Region: prfA; PRK00591 394221007286 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 394221007287 putative active site [active] 394221007288 Zn binding site [ion binding]; other site 394221007289 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 394221007290 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 394221007291 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 394221007292 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394221007293 ligand binding site [chemical binding]; other site 394221007294 flexible hinge region; other site 394221007295 Helix-turn-helix domains; Region: HTH; cl00088 394221007296 cyclase homology domain; Region: CHD; cd07302 394221007297 nucleotidyl binding site; other site 394221007298 metal binding site [ion binding]; metal-binding site 394221007299 dimer interface [polypeptide binding]; other site 394221007300 TIR domain; Region: TIR_2; cl15770 394221007301 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 394221007302 Dehydratase family; Region: ILVD_EDD; cl00340 394221007303 6-phosphogluconate dehydratase; Region: edd; TIGR01196 394221007304 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 394221007305 putative active site [active] 394221007306 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 394221007307 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 394221007308 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 394221007309 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 394221007310 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 394221007311 Surface antigen; Region: Bac_surface_Ag; cl03097 394221007312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 394221007313 Family of unknown function (DUF490); Region: DUF490; pfam04357 394221007314 Mechanosensitive ion channel; Region: MS_channel; pfam00924 394221007315 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 394221007316 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 394221007317 BCCT family transporter; Region: BCCT; cl00569 394221007318 Tetratricopeptide repeat; Region: TPR_16; pfam13432 394221007319 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221007320 TPR motif; other site 394221007321 binding surface 394221007322 Tetratricopeptide repeat; Region: TPR_16; pfam13432 394221007323 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221007324 binding surface 394221007325 TPR motif; other site 394221007326 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221007327 binding surface 394221007328 TPR motif; other site 394221007329 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 394221007330 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 394221007331 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221007332 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221007333 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394221007334 Helix-turn-helix domains; Region: HTH; cl00088 394221007335 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 394221007336 CoA-transferase family III; Region: CoA_transf_3; pfam02515 394221007337 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394221007338 substrate binding site [chemical binding]; other site 394221007339 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 394221007340 oxyanion hole (OAH) forming residues; other site 394221007341 trimer interface [polypeptide binding]; other site 394221007342 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007343 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 394221007344 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 394221007345 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 394221007346 AMP-binding enzyme; Region: AMP-binding; cl15778 394221007347 AMP-binding enzyme; Region: AMP-binding; cl15778 394221007348 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 394221007349 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 394221007350 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 394221007351 classical (c) SDRs; Region: SDR_c; cd05233 394221007352 NAD(P) binding site [chemical binding]; other site 394221007353 active site 394221007354 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 394221007355 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 394221007356 putative active site [active] 394221007357 putative substrate binding site [chemical binding]; other site 394221007358 ATP binding site [chemical binding]; other site 394221007359 Helix-turn-helix domains; Region: HTH; cl00088 394221007360 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394221007361 Helix-turn-helix domains; Region: HTH; cl00088 394221007362 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221007363 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221007364 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 394221007365 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221007366 putative substrate translocation pore; other site 394221007367 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 394221007368 DUF35 OB-fold domain; Region: DUF35; pfam01796 394221007369 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 394221007370 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 394221007371 active site 394221007372 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 394221007373 MFS/sugar transport protein; Region: MFS_2; pfam13347 394221007374 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 394221007375 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 394221007376 dimer interface [polypeptide binding]; other site 394221007377 active site 394221007378 acyl-CoA thioesterase II; Region: tesB; TIGR00189 394221007379 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 394221007380 active site 394221007381 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 394221007382 catalytic triad [active] 394221007383 dimer interface [polypeptide binding]; other site 394221007384 gamma-glutamyl kinase; Provisional; Region: PRK05429 394221007385 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 394221007386 nucleotide binding site [chemical binding]; other site 394221007387 homotetrameric interface [polypeptide binding]; other site 394221007388 putative phosphate binding site [ion binding]; other site 394221007389 putative allosteric binding site; other site 394221007390 PUA domain; Region: PUA; cl00607 394221007391 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 394221007392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007394 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 394221007395 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 394221007396 putative catalytic cysteine [active] 394221007397 Sodium:solute symporter family; Region: SSF; cl00456 394221007398 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 394221007399 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 394221007400 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 394221007401 active site 394221007402 intersubunit interface [polypeptide binding]; other site 394221007403 catalytic residue [active] 394221007404 glucokinase, proteobacterial type; Region: glk; TIGR00749 394221007405 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 394221007406 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394221007407 classical (c) SDRs; Region: SDR_c; cd05233 394221007408 NAD(P) binding site [chemical binding]; other site 394221007409 active site 394221007410 RDD family; Region: RDD; cl00746 394221007411 Integral membrane protein DUF95; Region: DUF95; cl00572 394221007412 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 394221007413 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 394221007414 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 394221007415 MoxR-like ATPases [General function prediction only]; Region: COG0714 394221007416 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221007417 Walker A motif; other site 394221007418 ATP binding site [chemical binding]; other site 394221007419 Walker B motif; other site 394221007420 arginine finger; other site 394221007421 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 394221007422 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221007423 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 394221007424 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394221007425 active site 394221007426 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 394221007427 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394221007428 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 394221007429 putative dimer interface [polypeptide binding]; other site 394221007430 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 394221007431 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 394221007432 SLBB domain; Region: SLBB; pfam10531 394221007433 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 394221007434 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 394221007435 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 394221007436 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 394221007437 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 394221007438 [4Fe-4S] binding site [ion binding]; other site 394221007439 molybdopterin cofactor binding site; other site 394221007440 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 394221007441 molybdopterin cofactor binding site; other site 394221007442 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 394221007443 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 394221007444 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 394221007445 heme binding site [chemical binding]; other site 394221007446 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 394221007447 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 394221007448 AMP-binding enzyme; Region: AMP-binding; cl15778 394221007449 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 394221007450 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 394221007451 homotrimer interaction site [polypeptide binding]; other site 394221007452 putative active site [active] 394221007453 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 394221007454 active site 394221007455 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 394221007456 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394221007457 active site 394221007458 enoyl-CoA hydratase; Provisional; Region: PRK06688 394221007459 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394221007460 substrate binding site [chemical binding]; other site 394221007461 oxyanion hole (OAH) forming residues; other site 394221007462 trimer interface [polypeptide binding]; other site 394221007463 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394221007464 Helix-turn-helix domains; Region: HTH; cl00088 394221007465 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394221007466 classical (c) SDRs; Region: SDR_c; cd05233 394221007467 NAD(P) binding site [chemical binding]; other site 394221007468 active site 394221007469 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 394221007470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007471 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 394221007472 active site 394221007473 FMN binding site [chemical binding]; other site 394221007474 substrate binding site [chemical binding]; other site 394221007475 homotetramer interface [polypeptide binding]; other site 394221007476 catalytic residue [active] 394221007477 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 394221007478 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 394221007479 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 394221007480 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 394221007481 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 394221007482 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 394221007483 MFS/sugar transport protein; Region: MFS_2; pfam13347 394221007484 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 394221007485 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221007486 ATP binding site [chemical binding]; other site 394221007487 Mg2+ binding site [ion binding]; other site 394221007488 G-X-G motif; other site 394221007489 Response regulator receiver domain; Region: Response_reg; pfam00072 394221007490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221007491 active site 394221007492 phosphorylation site [posttranslational modification] 394221007493 intermolecular recognition site; other site 394221007494 dimerization interface [polypeptide binding]; other site 394221007495 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394221007496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221007497 active site 394221007498 phosphorylation site [posttranslational modification] 394221007499 intermolecular recognition site; other site 394221007500 dimerization interface [polypeptide binding]; other site 394221007501 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394221007502 DNA binding residues [nucleotide binding] 394221007503 dimerization interface [polypeptide binding]; other site 394221007504 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 394221007505 active site clefts [active] 394221007506 zinc binding site [ion binding]; other site 394221007507 dimer interface [polypeptide binding]; other site 394221007508 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 394221007509 PPIC-type PPIASE domain; Region: Rotamase; cl08278 394221007510 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 394221007511 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 394221007512 nitrate reductase, beta subunit; Region: narH; TIGR01660 394221007513 4Fe-4S binding domain; Region: Fer4; cl02805 394221007514 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 394221007515 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 394221007516 [4Fe-4S] binding site [ion binding]; other site 394221007517 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 394221007518 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 394221007519 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 394221007520 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 394221007521 molybdopterin cofactor binding site; other site 394221007522 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 394221007523 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 394221007524 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 394221007525 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221007526 putative substrate translocation pore; other site 394221007527 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 394221007528 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394221007529 ligand binding site [chemical binding]; other site 394221007530 flexible hinge region; other site 394221007531 Helix-turn-helix domains; Region: HTH; cl00088 394221007532 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 394221007533 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 394221007534 GTP binding site; other site 394221007535 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 394221007536 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394221007537 FeS/SAM binding site; other site 394221007538 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 394221007539 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 394221007540 MoaE interaction surface [polypeptide binding]; other site 394221007541 MoeB interaction surface [polypeptide binding]; other site 394221007542 thiocarboxylated glycine; other site 394221007543 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 394221007544 MoaE homodimer interface [polypeptide binding]; other site 394221007545 MoaD interaction [polypeptide binding]; other site 394221007546 active site residues [active] 394221007547 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 394221007548 MPT binding site; other site 394221007549 trimer interface [polypeptide binding]; other site 394221007550 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 394221007551 trimer interface [polypeptide binding]; other site 394221007552 dimer interface [polypeptide binding]; other site 394221007553 putative active site [active] 394221007554 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 394221007555 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 394221007556 dimer interface [polypeptide binding]; other site 394221007557 putative functional site; other site 394221007558 putative MPT binding site; other site 394221007559 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 394221007560 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394221007561 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394221007562 DNA binding site [nucleotide binding] 394221007563 domain linker motif; other site 394221007564 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 394221007565 putative dimerization interface [polypeptide binding]; other site 394221007566 putative ligand binding site [chemical binding]; other site 394221007567 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 394221007568 MFS/sugar transport protein; Region: MFS_2; pfam13347 394221007569 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 394221007570 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221007571 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221007572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007576 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 394221007577 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 394221007578 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 394221007579 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 394221007580 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 394221007581 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 394221007582 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 394221007583 Strictosidine synthase; Region: Str_synth; pfam03088 394221007584 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 394221007585 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 394221007586 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 394221007587 Fibronectin type III-like domain; Region: Fn3-like; cl15273 394221007588 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 394221007589 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 394221007590 ATP-binding site [chemical binding]; other site 394221007591 Gluconate-6-phosphate binding site [chemical binding]; other site 394221007592 Sodium:solute symporter family; Region: SSF; cl00456 394221007593 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 394221007594 active site 394221007595 catalytic site [active] 394221007596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007598 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 394221007599 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221007600 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 394221007601 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 394221007602 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 394221007603 active site 394221007604 catalytic site [active] 394221007605 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 394221007606 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394221007607 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394221007608 DNA binding site [nucleotide binding] 394221007609 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 394221007610 putative dimerization interface [polypeptide binding]; other site 394221007611 putative ligand binding site [chemical binding]; other site 394221007612 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 394221007613 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 394221007614 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 394221007615 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 394221007616 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 394221007617 active site 394221007618 catalytic site [active] 394221007619 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 394221007620 Putative esterase; Region: Esterase; pfam00756 394221007621 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221007622 JmjC domain, hydroxylase; Region: JmjC; cl15814 394221007623 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394221007624 active site 394221007625 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394221007626 catalytic tetrad [active] 394221007627 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394221007628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221007629 active site 394221007630 phosphorylation site [posttranslational modification] 394221007631 intermolecular recognition site; other site 394221007632 dimerization interface [polypeptide binding]; other site 394221007633 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394221007634 DNA binding residues [nucleotide binding] 394221007635 dimerization interface [polypeptide binding]; other site 394221007636 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 394221007637 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394221007638 putative active site [active] 394221007639 heme pocket [chemical binding]; other site 394221007640 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221007641 dimer interface [polypeptide binding]; other site 394221007642 phosphorylation site [posttranslational modification] 394221007643 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221007644 ATP binding site [chemical binding]; other site 394221007645 Mg2+ binding site [ion binding]; other site 394221007646 G-X-G motif; other site 394221007647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221007648 Response regulator receiver domain; Region: Response_reg; pfam00072 394221007649 active site 394221007650 phosphorylation site [posttranslational modification] 394221007651 intermolecular recognition site; other site 394221007652 dimerization interface [polypeptide binding]; other site 394221007653 Heme NO binding; Region: HNOB; cl15268 394221007654 TolB amino-terminal domain; Region: TolB_N; cl00639 394221007655 Response regulator receiver domain; Region: Response_reg; pfam00072 394221007656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221007657 active site 394221007658 phosphorylation site [posttranslational modification] 394221007659 intermolecular recognition site; other site 394221007660 dimerization interface [polypeptide binding]; other site 394221007661 HEAT repeats; Region: HEAT_2; pfam13646 394221007662 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 394221007663 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 394221007664 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394221007665 DXD motif; other site 394221007666 Helix-turn-helix domains; Region: HTH; cl00088 394221007667 Helix-turn-helix domains; Region: HTH; cl00088 394221007668 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 394221007669 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 394221007670 NAD binding site [chemical binding]; other site 394221007671 homodimer interface [polypeptide binding]; other site 394221007672 active site 394221007673 substrate binding site [chemical binding]; other site 394221007674 Helix-turn-helix domains; Region: HTH; cl00088 394221007675 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 394221007676 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 394221007677 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 394221007678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007679 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394221007680 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394221007681 Sel1 repeat; Region: Sel1; cl02723 394221007682 Sel1 repeat; Region: Sel1; cl02723 394221007683 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394221007684 Sel1 repeat; Region: Sel1; cl02723 394221007685 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394221007686 Sel1 repeat; Region: Sel1; cl02723 394221007687 Sel1 repeat; Region: Sel1; cl02723 394221007688 Predicted permease; Region: DUF318; pfam03773 394221007689 Family description; Region: VCBS; pfam13517 394221007690 Family description; Region: VCBS; pfam13517 394221007691 Family description; Region: VCBS; pfam13517 394221007692 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 394221007693 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 394221007694 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 394221007695 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 394221007696 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 394221007697 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 394221007698 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 394221007699 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 394221007700 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 394221007701 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 394221007702 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 394221007703 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 394221007704 Walker A motif; other site 394221007705 ATP binding site [chemical binding]; other site 394221007706 Walker B motif; other site 394221007707 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 394221007708 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 394221007709 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 394221007710 DDE domain; Region: DDE_Tnp_IS240; pfam13610 394221007711 Integrase core domain; Region: rve; cl01316 394221007712 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 394221007713 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 394221007714 Uncharacterized conserved protein [Function unknown]; Region: COG3743 394221007715 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 394221007716 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394221007717 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221007718 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 394221007719 Gram-negative bacterial tonB protein; Region: TonB; cl10048 394221007720 GTPase CgtA; Reviewed; Region: obgE; PRK12299 394221007721 GTP1/OBG; Region: GTP1_OBG; pfam01018 394221007722 Obg GTPase; Region: Obg; cd01898 394221007723 G1 box; other site 394221007724 GTP/Mg2+ binding site [chemical binding]; other site 394221007725 Switch I region; other site 394221007726 G2 box; other site 394221007727 G3 box; other site 394221007728 Switch II region; other site 394221007729 G4 box; other site 394221007730 G5 box; other site 394221007731 gamma-glutamyl kinase; Provisional; Region: PRK05429 394221007732 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 394221007733 nucleotide binding site [chemical binding]; other site 394221007734 homotetrameric interface [polypeptide binding]; other site 394221007735 putative phosphate binding site [ion binding]; other site 394221007736 putative allosteric binding site; other site 394221007737 PUA domain; Region: PUA; cl00607 394221007738 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 394221007739 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 394221007740 active site 394221007741 (T/H)XGH motif; other site 394221007742 probable methyltransferase; Region: TIGR03438 394221007743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007744 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 394221007745 Oligomerisation domain; Region: Oligomerisation; cl00519 394221007746 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 394221007747 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 394221007748 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 394221007749 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 394221007750 C-terminal peptidase (prc); Region: prc; TIGR00225 394221007751 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 394221007752 protein binding site [polypeptide binding]; other site 394221007753 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 394221007754 Catalytic dyad [active] 394221007755 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 394221007756 NodB motif; other site 394221007757 putative active site [active] 394221007758 putative catalytic site [active] 394221007759 Zn binding site [ion binding]; other site 394221007760 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 394221007761 putative active site [active] 394221007762 Ap4A binding site [chemical binding]; other site 394221007763 nudix motif; other site 394221007764 putative metal binding site [ion binding]; other site 394221007765 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 394221007766 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 394221007767 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 394221007768 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 394221007769 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 394221007770 alpha subunit interaction interface [polypeptide binding]; other site 394221007771 Walker A motif; other site 394221007772 ATP binding site [chemical binding]; other site 394221007773 Walker B motif; other site 394221007774 inhibitor binding site; inhibition site 394221007775 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 394221007776 ATP synthase; Region: ATP-synt; cl00365 394221007777 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 394221007778 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 394221007779 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 394221007780 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 394221007781 beta subunit interaction interface [polypeptide binding]; other site 394221007782 Walker A motif; other site 394221007783 ATP binding site [chemical binding]; other site 394221007784 Walker B motif; other site 394221007785 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 394221007786 Plant ATP synthase F0; Region: YMF19; cl07975 394221007787 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 394221007788 Integral membrane protein TerC family; Region: TerC; cl10468 394221007789 primosome assembly protein PriA; Validated; Region: PRK05580 394221007790 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394221007791 ATP binding site [chemical binding]; other site 394221007792 putative Mg++ binding site [ion binding]; other site 394221007793 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221007794 GAF domain; Region: GAF; cl15785 394221007795 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 394221007796 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394221007797 DNA binding site [nucleotide binding] 394221007798 Int/Topo IB signature motif; other site 394221007799 active site 394221007800 Helix-turn-helix domains; Region: HTH; cl00088 394221007801 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394221007802 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221007803 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 394221007804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007805 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394221007806 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394221007807 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394221007808 E3 interaction surface; other site 394221007809 lipoyl attachment site [posttranslational modification]; other site 394221007810 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 394221007811 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394221007812 E3 interaction surface; other site 394221007813 lipoyl attachment site [posttranslational modification]; other site 394221007814 e3 binding domain; Region: E3_binding; pfam02817 394221007815 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 394221007816 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 394221007817 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 394221007818 TPP-binding site [chemical binding]; other site 394221007819 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 394221007820 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 394221007821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007822 CoA-ligase; Region: Ligase_CoA; cl02894 394221007823 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 394221007824 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221007825 CoA-ligase; Region: Ligase_CoA; cl02894 394221007826 DoxX; Region: DoxX; cl00976 394221007827 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 394221007828 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 394221007829 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 394221007830 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 394221007831 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 394221007832 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 394221007833 Mg++ binding site [ion binding]; other site 394221007834 LytTr DNA-binding domain; Region: LytTR; cl04498 394221007835 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394221007836 TspO/MBR family; Region: TspO_MBR; cl01379 394221007837 malate dehydrogenase; Reviewed; Region: PRK06223 394221007838 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 394221007839 NAD(P) binding site [chemical binding]; other site 394221007840 dimer interface [polypeptide binding]; other site 394221007841 tetramer (dimer of dimers) interface [polypeptide binding]; other site 394221007842 substrate binding site [chemical binding]; other site 394221007843 Helix-turn-helix domain; Region: HTH_18; pfam12833 394221007844 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394221007845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007846 O-methyltransferase; Region: Methyltransf_3; pfam01596 394221007847 Predicted ATPase [General function prediction only]; Region: COG1485 394221007848 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 394221007849 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 394221007850 active site 394221007851 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 394221007852 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 394221007853 putative active site [active] 394221007854 metal binding site [ion binding]; metal-binding site 394221007855 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 394221007856 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394221007857 tetrameric interface [polypeptide binding]; other site 394221007858 NAD binding site [chemical binding]; other site 394221007859 catalytic residues [active] 394221007860 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 394221007861 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 394221007862 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221007863 putative DNA binding site [nucleotide binding]; other site 394221007864 putative Zn2+ binding site [ion binding]; other site 394221007865 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221007866 putative acyl-acceptor binding pocket; other site 394221007867 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 394221007868 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 394221007869 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 394221007870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007871 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 394221007872 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 394221007873 Iron-sulfur protein interface; other site 394221007874 proximal heme binding site [chemical binding]; other site 394221007875 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 394221007876 Iron-sulfur protein interface; other site 394221007877 proximal quinone binding site [chemical binding]; other site 394221007878 SdhD (CybS) interface [polypeptide binding]; other site 394221007879 proximal heme binding site [chemical binding]; other site 394221007880 short chain dehydrogenase; Provisional; Region: PRK06914 394221007881 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 394221007882 NADP binding site [chemical binding]; other site 394221007883 active site 394221007884 steroid binding site; other site 394221007885 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 394221007886 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 394221007887 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 394221007888 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394221007889 FeS/SAM binding site; other site 394221007890 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 394221007891 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 394221007892 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 394221007893 P loop; other site 394221007894 GTP binding site [chemical binding]; other site 394221007895 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 394221007896 Intracellular septation protein A; Region: IspA; cl01098 394221007897 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394221007898 Helix-turn-helix domains; Region: HTH; cl00088 394221007899 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394221007900 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 394221007901 CcmB protein; Region: CcmB; cl01016 394221007902 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 394221007903 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221007904 Walker A/P-loop; other site 394221007905 ATP binding site [chemical binding]; other site 394221007906 Q-loop/lid; other site 394221007907 ABC transporter signature motif; other site 394221007908 Walker B; other site 394221007909 D-loop; other site 394221007910 H-loop/switch region; other site 394221007911 aconitate hydratase; Validated; Region: PRK09277 394221007912 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 394221007913 substrate binding site [chemical binding]; other site 394221007914 ligand binding site [chemical binding]; other site 394221007915 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 394221007916 substrate binding site [chemical binding]; other site 394221007917 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 394221007918 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 394221007919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221007920 active site 394221007921 phosphorylation site [posttranslational modification] 394221007922 intermolecular recognition site; other site 394221007923 dimerization interface [polypeptide binding]; other site 394221007924 Helix-turn-helix domains; Region: HTH; cl00088 394221007925 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221007926 phosphorylation site [posttranslational modification] 394221007927 dimer interface [polypeptide binding]; other site 394221007928 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221007929 ATP binding site [chemical binding]; other site 394221007930 Mg2+ binding site [ion binding]; other site 394221007931 G-X-G motif; other site 394221007932 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 394221007933 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 394221007934 Cu(I) binding site [ion binding]; other site 394221007935 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 394221007936 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 394221007937 Transglycosylase; Region: Transgly; cl07896 394221007938 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 394221007939 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221007940 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 394221007941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007942 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 394221007943 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 394221007944 active site 394221007945 catalytic site [active] 394221007946 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 394221007947 DNA-binding site [nucleotide binding]; DNA binding site 394221007948 RNA-binding motif; other site 394221007949 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 394221007950 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221007951 active site 394221007952 metal binding site [ion binding]; metal-binding site 394221007953 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 394221007954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221007955 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 394221007956 Predicted permeases [General function prediction only]; Region: RarD; COG2962 394221007957 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221007958 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394221007959 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221007960 pyridoxamine kinase; Validated; Region: PRK05756 394221007961 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 394221007962 substrate binding site [chemical binding]; other site 394221007963 ATP binding site [chemical binding]; other site 394221007964 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 394221007965 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 394221007966 ArsC family; Region: ArsC; pfam03960 394221007967 catalytic residues [active] 394221007968 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 394221007969 Predicted transcriptional regulators [Transcription]; Region: COG1510 394221007970 Helix-turn-helix domains; Region: HTH; cl00088 394221007971 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 394221007972 Helix-turn-helix domains; Region: HTH; cl00088 394221007973 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 394221007974 dimerization interface [polypeptide binding]; other site 394221007975 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 394221007976 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 394221007977 dimer interface [polypeptide binding]; other site 394221007978 decamer (pentamer of dimers) interface [polypeptide binding]; other site 394221007979 catalytic triad [active] 394221007980 peroxidatic and resolving cysteines [active] 394221007981 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 394221007982 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 394221007983 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 394221007984 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 394221007985 Protein of unknown function (DUF1475); Region: DUF1475; pfam07343 394221007986 signal recognition particle protein; Provisional; Region: PRK10867 394221007987 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 394221007988 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 394221007989 P loop; other site 394221007990 GTP binding site [chemical binding]; other site 394221007991 Signal peptide binding domain; Region: SRP_SPB; pfam02978 394221007992 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 394221007993 RimM N-terminal domain; Region: RimM; pfam01782 394221007994 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 394221007995 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 394221007996 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 394221007997 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 394221007998 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 394221007999 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394221008000 TPR motif; other site 394221008001 binding surface 394221008002 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 394221008003 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 394221008004 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 394221008005 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 394221008006 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 394221008007 conserved cys residue [active] 394221008008 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221008009 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 394221008010 active site 394221008011 metal binding site [ion binding]; metal-binding site 394221008012 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 394221008013 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 394221008014 ABC-2 type transporter; Region: ABC2_membrane; cl11417 394221008015 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 394221008016 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221008017 Walker A/P-loop; other site 394221008018 ATP binding site [chemical binding]; other site 394221008019 Q-loop/lid; other site 394221008020 ABC transporter signature motif; other site 394221008021 Walker B; other site 394221008022 D-loop; other site 394221008023 H-loop/switch region; other site 394221008024 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 394221008025 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 394221008026 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 394221008027 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 394221008028 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 394221008029 Low molecular weight phosphatase family; Region: LMWPc; cd00115 394221008030 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 394221008031 active site 394221008032 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 394221008033 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394221008034 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221008035 dimer interface [polypeptide binding]; other site 394221008036 phosphorylation site [posttranslational modification] 394221008037 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221008038 ATP binding site [chemical binding]; other site 394221008039 Mg2+ binding site [ion binding]; other site 394221008040 G-X-G motif; other site 394221008041 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 394221008042 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 394221008043 ANP binding site [chemical binding]; other site 394221008044 Substrate Binding Site II [chemical binding]; other site 394221008045 Substrate Binding Site I [chemical binding]; other site 394221008046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 394221008047 Glutaminase; Region: Glutaminase; cl00907 394221008048 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 394221008049 SdpI/YhfL protein family; Region: SdpI; pfam13630 394221008050 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394221008051 dimerization interface [polypeptide binding]; other site 394221008052 putative DNA binding site [nucleotide binding]; other site 394221008053 putative Zn2+ binding site [ion binding]; other site 394221008054 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 394221008055 active site 394221008056 dimer interface [polypeptide binding]; other site 394221008057 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 394221008058 Peptidase family M48; Region: Peptidase_M48; cl12018 394221008059 16S rRNA methyltransferase B; Provisional; Region: PRK10901 394221008060 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 394221008061 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221008062 S-adenosylmethionine binding site [chemical binding]; other site 394221008063 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 394221008064 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 394221008065 substrate binding site [chemical binding]; other site 394221008066 hexamer interface [polypeptide binding]; other site 394221008067 metal binding site [ion binding]; metal-binding site 394221008068 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 394221008069 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 394221008070 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 394221008071 NAD(P) binding site [chemical binding]; other site 394221008072 homodimer interface [polypeptide binding]; other site 394221008073 substrate binding site [chemical binding]; other site 394221008074 active site 394221008075 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 394221008076 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 394221008077 purine monophosphate binding site [chemical binding]; other site 394221008078 dimer interface [polypeptide binding]; other site 394221008079 putative catalytic residues [active] 394221008080 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 394221008081 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 394221008082 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 394221008083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221008084 Isochorismatase family; Region: Isochorismatase; pfam00857 394221008085 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 394221008086 catalytic triad [active] 394221008087 conserved cis-peptide bond; other site 394221008088 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221008089 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394221008090 Helix-turn-helix domains; Region: HTH; cl00088 394221008091 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394221008092 dimerization interface [polypeptide binding]; other site 394221008093 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221008094 sequence-specific DNA binding site [nucleotide binding]; other site 394221008095 salt bridge; other site 394221008096 Cytochrome c; Region: Cytochrom_C; cl11414 394221008097 Uncharacterized conserved protein [Function unknown]; Region: COG3760 394221008098 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 394221008099 putative deacylase active site [active] 394221008100 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 394221008101 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 394221008102 Trm112p-like protein; Region: Trm112p; cl01066 394221008103 Protein of unknown function (DUF971); Region: DUF971; cl01414 394221008104 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394221008105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221008106 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 394221008107 DsrE/DsrF-like family; Region: DrsE; cl00672 394221008108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221008109 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 394221008110 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 394221008111 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221008112 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 394221008113 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 394221008114 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 394221008115 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 394221008116 putative phosphate binding site [ion binding]; other site 394221008117 putative catalytic site [active] 394221008118 active site 394221008119 metal binding site A [ion binding]; metal-binding site 394221008120 DNA binding site [nucleotide binding] 394221008121 putative AP binding site [nucleotide binding]; other site 394221008122 putative metal binding site B [ion binding]; other site 394221008123 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 394221008124 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394221008125 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221008126 active site 394221008127 phosphorylation site [posttranslational modification] 394221008128 intermolecular recognition site; other site 394221008129 dimerization interface [polypeptide binding]; other site 394221008130 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394221008131 DNA binding site [nucleotide binding] 394221008132 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 394221008133 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 394221008134 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394221008135 catalytic residue [active] 394221008136 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 394221008137 thiamine phosphate binding site [chemical binding]; other site 394221008138 active site 394221008139 pyrophosphate binding site [ion binding]; other site 394221008140 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 394221008141 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 394221008142 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 394221008143 HIGH motif; other site 394221008144 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 394221008145 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 394221008146 active site 394221008147 KMSKS motif; other site 394221008148 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 394221008149 tRNA binding surface [nucleotide binding]; other site 394221008150 Lipopolysaccharide-assembly; Region: LptE; cl01125 394221008151 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 394221008152 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 394221008153 ParB-like partition proteins; Region: parB_part; TIGR00180 394221008154 ParB-like nuclease domain; Region: ParBc; cl02129 394221008155 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 394221008156 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221008157 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 394221008158 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 394221008159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221008160 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 394221008161 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 394221008162 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 394221008163 trmE is a tRNA modification GTPase; Region: trmE; cd04164 394221008164 G1 box; other site 394221008165 GTP/Mg2+ binding site [chemical binding]; other site 394221008166 Switch I region; other site 394221008167 G2 box; other site 394221008168 Switch II region; other site 394221008169 G3 box; other site 394221008170 G4 box; other site 394221008171 G5 box; other site 394221008172 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 394221008173 LytTr DNA-binding domain; Region: LytTR; cl04498 394221008174 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394221008175 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 394221008176 putative C-terminal domain interface [polypeptide binding]; other site 394221008177 putative GSH binding site (G-site) [chemical binding]; other site 394221008178 putative dimer interface [polypeptide binding]; other site 394221008179 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 394221008180 N-terminal domain interface [polypeptide binding]; other site 394221008181 dimer interface [polypeptide binding]; other site 394221008182 substrate binding pocket (H-site) [chemical binding]; other site 394221008183 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 394221008184 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 394221008185 putative active site [active] 394221008186 catalytic site [active] 394221008187 putative metal binding site [ion binding]; other site 394221008188 oligomer interface [polypeptide binding]; other site 394221008189 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 394221008190 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 394221008191 NADP binding site [chemical binding]; other site 394221008192 dimer interface [polypeptide binding]; other site 394221008193 transcription termination factor Rho; Provisional; Region: rho; PRK09376 394221008194 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 394221008195 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 394221008196 RNA binding site [nucleotide binding]; other site 394221008197 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 394221008198 multimer interface [polypeptide binding]; other site 394221008199 Walker A motif; other site 394221008200 ATP binding site [chemical binding]; other site 394221008201 Walker B motif; other site 394221008202 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 394221008203 Ferrochelatase; Region: Ferrochelatase; pfam00762 394221008204 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 394221008205 C-terminal domain interface [polypeptide binding]; other site 394221008206 active site 394221008207 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 394221008208 active site 394221008209 N-terminal domain interface [polypeptide binding]; other site 394221008210 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 394221008211 substrate binding site [chemical binding]; other site 394221008212 active site 394221008213 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 394221008214 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 394221008215 Maf-like protein; Provisional; Region: PRK14361 394221008216 active site 394221008217 dimer interface [polypeptide binding]; other site 394221008218 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 394221008219 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 394221008220 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 394221008221 shikimate binding site; other site 394221008222 NAD(P) binding site [chemical binding]; other site 394221008223 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 394221008224 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 394221008225 CoA-binding site [chemical binding]; other site 394221008226 ATP-binding [chemical binding]; other site 394221008227 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 394221008228 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 394221008229 active site 394221008230 substrate binding site [chemical binding]; other site 394221008231 catalytic site [active] 394221008232 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 394221008233 SecA binding site; other site 394221008234 Preprotein binding site; other site 394221008235 Tim44-like domain; Region: Tim44; cl09208 394221008236 MltA specific insert domain; Region: MltA; cl08398 394221008237 3D domain; Region: 3D; cl01439 394221008238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 394221008239 Smr domain; Region: Smr; cl02619 394221008240 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 394221008241 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221008242 Walker A motif; other site 394221008243 ATP binding site [chemical binding]; other site 394221008244 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221008245 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 394221008246 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 394221008247 putative metal binding site [ion binding]; other site 394221008248 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 394221008249 active site 394221008250 HslU subunit interaction site [polypeptide binding]; other site 394221008251 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 394221008252 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394221008253 dimerization interface [polypeptide binding]; other site 394221008254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394221008255 metal binding site [ion binding]; metal-binding site 394221008256 active site 394221008257 I-site; other site 394221008258 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394221008259 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 394221008260 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394221008261 substrate binding site [chemical binding]; other site 394221008262 ATP binding site [chemical binding]; other site 394221008263 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221008264 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 394221008265 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 394221008266 minor groove reading motif; other site 394221008267 helix-hairpin-helix signature motif; other site 394221008268 substrate binding pocket [chemical binding]; other site 394221008269 active site 394221008270 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 394221008271 LysE type translocator; Region: LysE; cl00565 394221008272 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 394221008273 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 394221008274 DNA binding site [nucleotide binding] 394221008275 active site 394221008276 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394221008277 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 394221008278 dimer interface [polypeptide binding]; other site 394221008279 active site 394221008280 metal binding site [ion binding]; metal-binding site 394221008281 glutathione binding site [chemical binding]; other site 394221008282 Helix-turn-helix domains; Region: HTH; cl00088 394221008283 WYL domain; Region: WYL; cl14852 394221008284 dihydrodipicolinate reductase; Provisional; Region: PRK00048 394221008285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221008286 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 394221008287 chaperone protein DnaJ; Provisional; Region: PRK10767 394221008288 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 394221008289 HSP70 interaction site [polypeptide binding]; other site 394221008290 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 394221008291 substrate binding site [polypeptide binding]; other site 394221008292 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 394221008293 Zn binding sites [ion binding]; other site 394221008294 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 394221008295 dimer interface [polypeptide binding]; other site 394221008296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221008297 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 394221008298 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 394221008299 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 394221008300 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 394221008301 active site 394221008302 FMN binding site [chemical binding]; other site 394221008303 substrate binding site [chemical binding]; other site 394221008304 3Fe-4S cluster binding site [ion binding]; other site 394221008305 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 394221008306 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 394221008307 dimer interface [polypeptide binding]; other site 394221008308 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 394221008309 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 394221008310 HrcA protein C terminal domain; Region: HrcA; pfam01628 394221008311 ribonuclease PH; Reviewed; Region: rph; PRK00173 394221008312 Ribonuclease PH; Region: RNase_PH_bact; cd11362 394221008313 hexamer interface [polypeptide binding]; other site 394221008314 active site 394221008315 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221008316 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 394221008317 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 394221008318 active site 394221008319 dimerization interface [polypeptide binding]; other site 394221008320 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 394221008321 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394221008322 FeS/SAM binding site; other site 394221008323 HemN C-terminal domain; Region: HemN_C; pfam06969 394221008324 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 394221008325 putative ligand binding site [chemical binding]; other site 394221008326 Predicted methyltransferases [General function prediction only]; Region: COG0313 394221008327 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 394221008328 Restriction endonuclease; Region: Mrr_cat; cl00516 394221008329 BON domain; Region: BON; cl02771 394221008330 BON domain; Region: BON; cl02771 394221008331 glutathione synthetase; Provisional; Region: PRK05246 394221008332 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 394221008333 ATP-grasp domain; Region: ATP-grasp_4; cl03087 394221008334 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 394221008335 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 394221008336 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394221008337 Walker A motif; other site 394221008338 ATP binding site [chemical binding]; other site 394221008339 Walker B motif; other site 394221008340 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 394221008341 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 394221008342 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394221008343 dimer interface [polypeptide binding]; other site 394221008344 phosphorylation site [posttranslational modification] 394221008345 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394221008346 ATP binding site [chemical binding]; other site 394221008347 Mg2+ binding site [ion binding]; other site 394221008348 G-X-G motif; other site 394221008349 Response regulator receiver domain; Region: Response_reg; pfam00072 394221008350 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394221008351 active site 394221008352 phosphorylation site [posttranslational modification] 394221008353 intermolecular recognition site; other site 394221008354 dimerization interface [polypeptide binding]; other site 394221008355 muropeptide transporter; Validated; Region: ampG; PRK11010 394221008356 muropeptide transporter; Validated; Region: ampG; PRK11010 394221008357 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 394221008358 Malic enzyme, N-terminal domain; Region: malic; pfam00390 394221008359 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 394221008360 putative NAD(P) binding site [chemical binding]; other site 394221008361 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 394221008362 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 394221008363 MutS domain I; Region: MutS_I; pfam01624 394221008364 MutS domain II; Region: MutS_II; pfam05188 394221008365 MutS family domain IV; Region: MutS_IV; pfam05190 394221008366 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 394221008367 Walker A/P-loop; other site 394221008368 ATP binding site [chemical binding]; other site 394221008369 Q-loop/lid; other site 394221008370 ABC transporter signature motif; other site 394221008371 Walker B; other site 394221008372 D-loop; other site 394221008373 H-loop/switch region; other site 394221008374 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 394221008375 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 394221008376 metal binding triad; other site 394221008377 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 394221008378 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 394221008379 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 394221008380 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 394221008381 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 394221008382 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 394221008383 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 394221008384 active site 394221008385 HIGH motif; other site 394221008386 dimer interface [polypeptide binding]; other site 394221008387 KMSKS motif; other site 394221008388 Protein of unknown function (DUF461); Region: DUF461; cl01071 394221008389 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 394221008390 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 394221008391 NifU-like domain; Region: NifU; cl00484 394221008392 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 394221008393 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 394221008394 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 394221008395 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 394221008396 metal binding site 2 [ion binding]; metal-binding site 394221008397 putative DNA binding helix; other site 394221008398 metal binding site 1 [ion binding]; metal-binding site 394221008399 dimer interface [polypeptide binding]; other site 394221008400 structural Zn2+ binding site [ion binding]; other site 394221008401 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394221008402 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394221008403 putative substrate translocation pore; other site 394221008404 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 394221008405 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 394221008406 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394221008407 FeS/SAM binding site; other site 394221008408 TRAM domain; Region: TRAM; cl01282 394221008409 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 394221008410 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221008411 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 394221008412 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 394221008413 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 394221008414 Transporter associated domain; Region: CorC_HlyC; cl08393 394221008415 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 394221008416 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 394221008417 putative active site [active] 394221008418 catalytic triad [active] 394221008419 putative dimer interface [polypeptide binding]; other site 394221008420 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394221008421 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394221008422 non-specific DNA binding site [nucleotide binding]; other site 394221008423 salt bridge; other site 394221008424 sequence-specific DNA binding site [nucleotide binding]; other site 394221008425 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 394221008426 ribosome maturation protein RimP; Reviewed; Region: PRK00092 394221008427 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 394221008428 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 394221008429 Sm1 motif; other site 394221008430 D3 - B interaction site; other site 394221008431 D1 - D2 interaction site; other site 394221008432 Hfq - Hfq interaction site; other site 394221008433 RNA binding pocket [nucleotide binding]; other site 394221008434 Sm2 motif; other site 394221008435 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 394221008436 NusA N-terminal domain; Region: NusA_N; pfam08529 394221008437 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 394221008438 RNA binding site [nucleotide binding]; other site 394221008439 homodimer interface [polypeptide binding]; other site 394221008440 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 394221008441 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 394221008442 G-X-X-G motif; other site 394221008443 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 394221008444 hypothetical protein; Provisional; Region: PRK09190 394221008445 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 394221008446 putative RNA binding cleft [nucleotide binding]; other site 394221008447 translation initiation factor IF-2; Region: IF-2; TIGR00487 394221008448 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 394221008449 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 394221008450 G1 box; other site 394221008451 putative GEF interaction site [polypeptide binding]; other site 394221008452 GTP/Mg2+ binding site [chemical binding]; other site 394221008453 Switch I region; other site 394221008454 G2 box; other site 394221008455 G3 box; other site 394221008456 Switch II region; other site 394221008457 G4 box; other site 394221008458 G5 box; other site 394221008459 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 394221008460 Translation-initiation factor 2; Region: IF-2; pfam11987 394221008461 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 394221008462 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 394221008463 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 394221008464 Ribosome-binding factor A; Region: RBFA; cl00542 394221008465 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 394221008466 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 394221008467 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 394221008468 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 394221008469 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 394221008470 RNA binding site [nucleotide binding]; other site 394221008471 active site 394221008472 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 394221008473 16S/18S rRNA binding site [nucleotide binding]; other site 394221008474 S13e-L30e interaction site [polypeptide binding]; other site 394221008475 25S rRNA binding site [nucleotide binding]; other site 394221008476 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 394221008477 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 394221008478 RNase E interface [polypeptide binding]; other site 394221008479 trimer interface [polypeptide binding]; other site 394221008480 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 394221008481 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 394221008482 RNase E interface [polypeptide binding]; other site 394221008483 trimer interface [polypeptide binding]; other site 394221008484 active site 394221008485 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 394221008486 putative nucleic acid binding region [nucleotide binding]; other site 394221008487 G-X-X-G motif; other site 394221008488 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 394221008489 RNA binding site [nucleotide binding]; other site 394221008490 domain interface; other site 394221008491 LytTr DNA-binding domain; Region: LytTR; cl04498 394221008492 Acyltransferase family; Region: Acyl_transf_3; pfam01757 394221008493 OpgC protein; Region: OpgC_C; cl00792 394221008494 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 394221008495 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 394221008496 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221008497 EcoRII C terminal; Region: EcoRII-C; pfam09019 394221008498 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 394221008499 additional DNA contacts [nucleotide binding]; other site 394221008500 mismatch recognition site; other site 394221008501 active site 394221008502 zinc binding site [ion binding]; other site 394221008503 DNA intercalation site [nucleotide binding]; other site 394221008504 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 394221008505 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 394221008506 cofactor binding site; other site 394221008507 DNA binding site [nucleotide binding] 394221008508 substrate interaction site [chemical binding]; other site 394221008509 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 394221008510 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 394221008511 NAD binding site [chemical binding]; other site 394221008512 homotetramer interface [polypeptide binding]; other site 394221008513 homodimer interface [polypeptide binding]; other site 394221008514 substrate binding site [chemical binding]; other site 394221008515 active site 394221008516 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 394221008517 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 394221008518 dimer interface [polypeptide binding]; other site 394221008519 active site 394221008520 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 394221008521 active site 1 [active] 394221008522 dimer interface [polypeptide binding]; other site 394221008523 active site 2 [active] 394221008524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 394221008525 Bacterial SH3 domain; Region: SH3_3; cl02551 394221008526 Bacterial SH3 domain; Region: SH3_3; cl02551 394221008527 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 394221008528 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 394221008529 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221008530 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 394221008531 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 394221008532 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 394221008533 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 394221008534 ATP binding site [chemical binding]; other site 394221008535 substrate interface [chemical binding]; other site 394221008536 PIF1-like helicase; Region: PIF1; pfam05970 394221008537 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 394221008538 Family description; Region: UvrD_C_2; cl15862 394221008539 Helicase; Region: Herpes_Helicase; pfam02689 394221008540 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 394221008541 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 394221008542 dimer interface [polypeptide binding]; other site 394221008543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394221008544 catalytic residue [active] 394221008545 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 394221008546 trimer interface [polypeptide binding]; other site 394221008547 active site 394221008548 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 394221008549 heme-binding site [chemical binding]; other site 394221008550 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 394221008551 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 394221008552 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 394221008553 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394221008554 S-adenosylmethionine binding site [chemical binding]; other site 394221008555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394221008556 Kua-ubiquitin conjugating enzyme hybrid localisation domain; Region: Kua-UEV1_localn; pfam10520 394221008557 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 394221008558 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 394221008559 DNA binding site [nucleotide binding] 394221008560 catalytic residue [active] 394221008561 H2TH interface [polypeptide binding]; other site 394221008562 putative catalytic residues [active] 394221008563 turnover-facilitating residue; other site 394221008564 intercalation triad [nucleotide binding]; other site 394221008565 8OG recognition residue [nucleotide binding]; other site 394221008566 putative reading head residues; other site 394221008567 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 394221008568 TraB family; Region: TraB; cl12050 394221008569 enoyl-CoA hydratase; Provisional; Region: PRK05862 394221008570 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394221008571 substrate binding site [chemical binding]; other site 394221008572 oxyanion hole (OAH) forming residues; other site 394221008573 trimer interface [polypeptide binding]; other site 394221008574 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384