-- dump date 20140619_092458 -- class Genbank::misc_feature -- table misc_feature_note -- id note 657322000001 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 657322000002 salt bridge; other site 657322000003 non-specific DNA binding site [nucleotide binding]; other site 657322000004 sequence-specific DNA binding site [nucleotide binding]; other site 657322000005 SnoaL-like domain; Region: SnoaL_2; pfam12680 657322000006 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657322000007 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 657322000008 non-specific DNA binding site [nucleotide binding]; other site 657322000009 salt bridge; other site 657322000010 sequence-specific DNA binding site [nucleotide binding]; other site 657322000011 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 657322000012 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 657322000013 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 657322000014 non-specific DNA binding site [nucleotide binding]; other site 657322000015 salt bridge; other site 657322000016 sequence-specific DNA binding site [nucleotide binding]; other site 657322000017 MobA/MobL family; Region: MobA_MobL; pfam03389 657322000018 Virulence-associated protein E; Region: VirE; pfam05272 657322000019 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322000020 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657322000021 putative catalytic residues [active] 657322000022 catalytic nucleophile [active] 657322000023 Recombinase; Region: Recombinase; pfam07508 657322000024 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322000025 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657322000026 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 657322000027 NlpC/P60 family; Region: NLPC_P60; pfam00877 657322000028 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 657322000029 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 657322000030 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 657322000031 active site 657322000032 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 657322000033 active site 657322000034 putative metal-binding site [ion binding]; other site 657322000035 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 657322000036 ATP binding site [chemical binding]; other site 657322000037 Mg2+ binding site [ion binding]; other site 657322000038 G-X-G motif; other site 657322000039 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 657322000040 MULE transposase domain; Region: MULE; pfam10551 657322000041 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657322000042 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657322000043 Walker A/P-loop; other site 657322000044 ATP binding site [chemical binding]; other site 657322000045 Q-loop/lid; other site 657322000046 ABC transporter signature motif; other site 657322000047 Walker B; other site 657322000048 D-loop; other site 657322000049 H-loop/switch region; other site 657322000050 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 657322000051 TraX protein; Region: TraX; cl05434 657322000052 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 657322000053 dimer interface [polypeptide binding]; other site 657322000054 phosphorylation site [posttranslational modification] 657322000055 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 657322000056 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 657322000057 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657322000058 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 657322000059 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 657322000060 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 657322000061 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657322000062 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 657322000063 active site 657322000064 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657322000065 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 657322000066 ATP binding site [chemical binding]; other site 657322000067 putative Mg++ binding site [ion binding]; other site 657322000068 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 657322000069 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 657322000070 nucleotide binding region [chemical binding]; other site 657322000071 ATP-binding site [chemical binding]; other site 657322000072 HRDC domain; Region: HRDC; pfam00570 657322000073 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 657322000074 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 657322000075 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 657322000076 ATP cone domain; Region: ATP-cone; pfam03477 657322000077 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657322000078 Maff2 family; Region: Maff2; pfam12750 657322000079 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 657322000080 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 657322000081 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cl00653 657322000082 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657322000083 hypothetical protein; Validated; Region: PRK08116 657322000084 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 657322000085 Walker A motif; other site 657322000086 ATP binding site [chemical binding]; other site 657322000087 Walker B motif; other site 657322000088 arginine finger; other site 657322000089 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 657322000090 Cysteine-rich VLP; Region: Cys_rich_VLP; pfam14194 657322000091 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 657322000092 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 657322000093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 657322000094 RNA polymerase sigma factor; Provisional; Region: PRK11924 657322000095 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657322000096 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 657322000097 DNA binding residues [nucleotide binding] 657322000098 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657322000099 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 657322000100 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657322000101 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657322000102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322000103 Walker A/P-loop; other site 657322000104 ATP binding site [chemical binding]; other site 657322000105 Q-loop/lid; other site 657322000106 ABC transporter signature motif; other site 657322000107 Walker B; other site 657322000108 D-loop; other site 657322000109 H-loop/switch region; other site 657322000110 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 657322000111 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657322000112 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322000113 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 657322000114 dimer interface [polypeptide binding]; other site 657322000115 phosphorylation site [posttranslational modification] 657322000116 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 657322000117 ATP binding site [chemical binding]; other site 657322000118 Mg2+ binding site [ion binding]; other site 657322000119 G-X-G motif; other site 657322000120 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322000121 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 657322000122 active site 657322000123 phosphorylation site [posttranslational modification] 657322000124 intermolecular recognition site; other site 657322000125 dimerization interface [polypeptide binding]; other site 657322000126 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 657322000127 DNA binding site [nucleotide binding] 657322000128 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322000129 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657322000130 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657322000131 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322000132 putative catalytic residues [active] 657322000133 catalytic nucleophile [active] 657322000134 Recombinase; Region: Recombinase; pfam07508 657322000135 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322000136 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657322000137 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 657322000138 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 657322000139 Transposase; Region: DEDD_Tnp_IS110; pfam01548 657322000140 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 657322000141 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 657322000142 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 657322000143 ParB-like nuclease domain; Region: ParB; smart00470 657322000144 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 657322000145 Helix-turn-helix domain; Region: HTH_17; cl17695 657322000146 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 657322000147 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 657322000148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 657322000149 YheO-like PAS domain; Region: PAS_6; pfam08348 657322000150 HTH domain; Region: HTH_22; pfam13309 657322000151 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 657322000152 homotrimer interaction site [polypeptide binding]; other site 657322000153 putative active site [active] 657322000154 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 657322000155 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 657322000156 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 657322000157 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 657322000158 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 657322000159 aspartate aminotransferase; Provisional; Region: PRK06836 657322000160 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 657322000161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322000162 homodimer interface [polypeptide binding]; other site 657322000163 catalytic residue [active] 657322000164 isocitrate dehydrogenase; Validated; Region: PRK08299 657322000165 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 657322000166 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 657322000167 active site 657322000168 catalytic residue [active] 657322000169 dimer interface [polypeptide binding]; other site 657322000170 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 657322000171 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 657322000172 metal binding site [ion binding]; metal-binding site 657322000173 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 657322000174 DNA topoisomerase; Region: Topoisom_bac; pfam01131 657322000175 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 657322000176 domain I; other site 657322000177 DNA binding groove [nucleotide binding] 657322000178 phosphate binding site [ion binding]; other site 657322000179 domain II; other site 657322000180 domain III; other site 657322000181 nucleotide binding site [chemical binding]; other site 657322000182 catalytic site [active] 657322000183 domain IV; other site 657322000184 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657322000185 Antirestriction protein (ArdA); Region: ArdA; cl01953 657322000186 Domain of unknown function (DUF955); Region: DUF955; pfam06114 657322000187 YodL-like; Region: YodL; pfam14191 657322000188 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 657322000189 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 657322000190 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 657322000191 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 657322000192 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 657322000193 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657322000194 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657322000195 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 657322000196 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322000197 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 657322000198 non-specific DNA binding site [nucleotide binding]; other site 657322000199 salt bridge; other site 657322000200 sequence-specific DNA binding site [nucleotide binding]; other site 657322000201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322000202 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 657322000203 dimer interface [polypeptide binding]; other site 657322000204 phosphorylation site [posttranslational modification] 657322000205 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 657322000206 ATP binding site [chemical binding]; other site 657322000207 Mg2+ binding site [ion binding]; other site 657322000208 G-X-G motif; other site 657322000209 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657322000210 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657322000211 Walker A/P-loop; other site 657322000212 ATP binding site [chemical binding]; other site 657322000213 Q-loop/lid; other site 657322000214 ABC transporter signature motif; other site 657322000215 Walker B; other site 657322000216 D-loop; other site 657322000217 H-loop/switch region; other site 657322000218 FtsX-like permease family; Region: FtsX; pfam02687 657322000219 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657322000220 FtsX-like permease family; Region: FtsX; pfam02687 657322000221 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657322000222 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 657322000223 DNA binding residues [nucleotide binding] 657322000224 Helix-turn-helix domain; Region: HTH_16; pfam12645 657322000225 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322000226 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 657322000227 catalytic residues [active] 657322000228 catalytic nucleophile [active] 657322000229 Recombinase; Region: Recombinase; pfam07508 657322000230 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322000231 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657322000232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322000233 metal binding site [ion binding]; metal-binding site 657322000234 active site 657322000235 I-site; other site 657322000236 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 657322000237 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 657322000238 active site 657322000239 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657322000240 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 657322000241 putative substrate binding site [chemical binding]; other site 657322000242 putative ATP binding site [chemical binding]; other site 657322000243 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657322000244 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322000245 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 657322000246 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 657322000247 Walker A/P-loop; other site 657322000248 ATP binding site [chemical binding]; other site 657322000249 Q-loop/lid; other site 657322000250 ABC transporter signature motif; other site 657322000251 Walker B; other site 657322000252 D-loop; other site 657322000253 H-loop/switch region; other site 657322000254 TOBE domain; Region: TOBE_2; pfam08402 657322000255 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657322000256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657322000257 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; cd05466 657322000258 dimerization interface [polypeptide binding]; other site 657322000259 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 657322000260 homodimer interaction site [polypeptide binding]; other site 657322000261 cofactor binding site; other site 657322000262 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 657322000263 non-specific DNA binding site [nucleotide binding]; other site 657322000264 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 657322000265 salt bridge; other site 657322000266 sequence-specific DNA binding site [nucleotide binding]; other site 657322000267 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 657322000268 Catalytic site [active] 657322000269 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 657322000270 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322000271 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 657322000272 catalytic residues [active] 657322000273 catalytic nucleophile [active] 657322000274 Recombinase; Region: Recombinase; pfam07508 657322000275 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322000276 HipA-like C-terminal domain; Region: HipA_C; pfam07804 657322000277 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 657322000278 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322000279 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 657322000280 non-specific DNA binding site [nucleotide binding]; other site 657322000281 salt bridge; other site 657322000282 sequence-specific DNA binding site [nucleotide binding]; other site 657322000283 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 657322000284 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 657322000285 active site 657322000286 catalytic residues [active] 657322000287 DNA binding site [nucleotide binding] 657322000288 Int/Topo IB signature motif; other site 657322000289 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322000290 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657322000291 Walker A motif; other site 657322000292 ATP binding site [chemical binding]; other site 657322000293 ATPase family associated with various cellular activities (AAA); Region: AAA; pfam00004 657322000294 Walker B motif; other site 657322000295 arginine finger; other site 657322000296 Peptidase family M41; Region: Peptidase_M41; pfam01434 657322000297 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 657322000298 non-specific DNA binding site [nucleotide binding]; other site 657322000299 salt bridge; other site 657322000300 sequence-specific DNA binding site [nucleotide binding]; other site 657322000301 Predicted transcriptional regulator [Transcription]; Region: COG2378 657322000302 WYL domain; Region: WYL; pfam13280 657322000303 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 657322000304 Dynamin family; Region: Dynamin_N; pfam00350 657322000305 G1 box; other site 657322000306 GTP/Mg2+ binding site [chemical binding]; other site 657322000307 G2 box; other site 657322000308 Switch I region; other site 657322000309 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322000310 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 657322000311 catalytic residues [active] 657322000312 catalytic nucleophile [active] 657322000313 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 657322000314 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657322000315 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657322000316 Protein of unknown function (DUF1071); Region: DUF1071; pfam06378 657322000317 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 657322000318 Domain of unknown function (DUF932); Region: DUF932; pfam06067 657322000319 Fic family protein [Function unknown]; Region: COG3177 657322000320 Fic/DOC family; Region: Fic; pfam02661 657322000321 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 657322000322 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 657322000323 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 657322000324 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657322000325 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 657322000326 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 657322000327 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 657322000328 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 657322000329 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 657322000330 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 657322000331 active site 657322000332 NTP binding site [chemical binding]; other site 657322000333 nucleic acid binding site [nucleotide binding]; other site 657322000334 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 657322000335 Sodium Bile acid symporter family; Region: SBF; pfam01758 657322000336 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 657322000337 putative ligand binding site [chemical binding]; other site 657322000338 putative NAD binding site [chemical binding]; other site 657322000339 putative catalytic site [active] 657322000340 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 657322000341 L-serine binding site [chemical binding]; other site 657322000342 ACT domain interface; other site 657322000343 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 657322000344 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657322000345 catalytic residue [active] 657322000346 Penicillinase repressor; Region: Pencillinase_R; cl17580 657322000347 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 657322000348 dimer interface [polypeptide binding]; other site 657322000349 Citrate synthase; Region: Citrate_synt; pfam00285 657322000350 active site 657322000351 citrylCoA binding site [chemical binding]; other site 657322000352 oxalacetate/citrate binding site [chemical binding]; other site 657322000353 coenzyme A binding site [chemical binding]; other site 657322000354 catalytic triad [active] 657322000355 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657322000356 MarR family; Region: MarR_2; cl17246 657322000357 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 657322000358 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 657322000359 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 657322000360 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 657322000361 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 657322000362 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 657322000363 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 657322000364 active site 657322000365 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 657322000366 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 657322000367 CoA binding domain; Region: CoA_binding; pfam02629 657322000368 thymidine kinase; Provisional; Region: PRK04296 657322000369 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657322000370 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657322000371 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657322000372 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 657322000373 dimer interface [polypeptide binding]; other site 657322000374 conserved gate region; other site 657322000375 putative PBP binding loops; other site 657322000376 ABC-ATPase subunit interface; other site 657322000377 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657322000378 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 657322000379 dimer interface [polypeptide binding]; other site 657322000380 conserved gate region; other site 657322000381 putative PBP binding loops; other site 657322000382 ABC-ATPase subunit interface; other site 657322000383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322000384 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657322000385 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322000386 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 657322000387 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 657322000388 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 657322000389 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 657322000390 active site 657322000391 zinc binding site [ion binding]; other site 657322000392 Peptidase family M23; Region: Peptidase_M23; pfam01551 657322000393 H+ Antiporter protein; Region: 2A0121; TIGR00900 657322000394 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 657322000395 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657322000396 flavoprotein, HI0933 family; Region: TIGR00275 657322000397 cytidylate kinase; Provisional; Region: cmk; PRK00023 657322000398 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 657322000399 CMP-binding site; other site 657322000400 The sites determining sugar specificity; other site 657322000401 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657322000402 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 657322000403 putative acyl-acceptor binding pocket; other site 657322000404 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 657322000405 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 657322000406 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...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 657322000407 RNA binding site [nucleotide binding]; other site 657322000408 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 657322000409 RNA binding site [nucleotide binding]; other site 657322000410 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...; Region: S1_RPS1_repeat_ec3; cd05688 657322000411 RNA binding site [nucleotide binding]; other site 657322000412 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 657322000413 RNA binding site [nucleotide binding]; other site 657322000414 Predicted membrane protein [Function unknown]; Region: COG2246 657322000415 GtrA-like protein; Region: GtrA; pfam04138 657322000416 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 657322000417 intersubunit interface [polypeptide binding]; other site 657322000418 active site 657322000419 catalytic residue [active] 657322000420 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657322000421 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322000422 metal binding site [ion binding]; metal-binding site 657322000423 active site 657322000424 I-site; other site 657322000425 S-adenosylmethionine synthetase; Validated; Region: PRK05250 657322000426 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 657322000427 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 657322000428 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 657322000429 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 657322000430 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 657322000431 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657322000432 active site 657322000433 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 657322000434 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657322000435 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657322000436 Walker A/P-loop; other site 657322000437 ATP binding site [chemical binding]; other site 657322000438 Q-loop/lid; other site 657322000439 ABC transporter signature motif; other site 657322000440 Walker B; other site 657322000441 D-loop; other site 657322000442 H-loop/switch region; other site 657322000443 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 657322000444 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 657322000445 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 657322000446 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657322000447 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 657322000448 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 657322000449 Walker A/P-loop; other site 657322000450 ATP binding site [chemical binding]; other site 657322000451 Q-loop/lid; other site 657322000452 ABC transporter signature motif; other site 657322000453 Walker B; other site 657322000454 D-loop; other site 657322000455 H-loop/switch region; other site 657322000456 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 657322000457 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 657322000458 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 657322000459 ligand binding site [chemical binding]; other site 657322000460 calcium binding site [ion binding]; other site 657322000461 Terminase-like family; Region: Terminase_6; pfam03237 657322000462 Phage terminase large subunit; Region: Terminase_3; cl12054 657322000463 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 657322000464 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 657322000465 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657322000466 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 657322000467 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 657322000468 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657322000469 Int/Topo IB signature motif; other site 657322000470 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 657322000471 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 657322000472 nucleotide binding region [chemical binding]; other site 657322000473 ATP-binding site [chemical binding]; other site 657322000474 Helicase associated domain; Region: HA; pfam03457 657322000475 Helicase associated domain; Region: HA; pfam03457 657322000476 Helicase associated domain; Region: HA; pfam03457 657322000477 Helicase associated domain; Region: HA; pfam03457 657322000478 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 657322000479 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657322000480 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 657322000481 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 657322000482 putative active site [active] 657322000483 putative catalytic site [active] 657322000484 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657322000485 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657322000486 active site 657322000487 metal binding site [ion binding]; metal-binding site 657322000488 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 657322000489 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 657322000490 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657322000491 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 657322000492 putative trimer interface [polypeptide binding]; other site 657322000493 putative CoA binding site [chemical binding]; other site 657322000494 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 657322000495 putative ligand binding site [chemical binding]; other site 657322000496 putative catalytic site [active] 657322000497 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 657322000498 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657322000499 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 657322000500 trimer interface [polypeptide binding]; other site 657322000501 active site 657322000502 substrate binding site [chemical binding]; other site 657322000503 CoA binding site [chemical binding]; other site 657322000504 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657322000505 O-Antigen ligase; Region: Wzy_C; pfam04932 657322000506 O-Antigen ligase; Region: Wzy_C; cl04850 657322000507 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 657322000508 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657322000509 4Fe-4S binding domain; Region: Fer4; pfam00037 657322000510 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 657322000511 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 657322000512 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 657322000513 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 657322000514 dimer interface [polypeptide binding]; other site 657322000515 active site 657322000516 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 657322000517 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 657322000518 active site 657322000519 substrate binding site [chemical binding]; other site 657322000520 metal binding site [ion binding]; metal-binding site 657322000521 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 657322000522 non-specific DNA binding site [nucleotide binding]; other site 657322000523 salt bridge; other site 657322000524 sequence-specific DNA binding site [nucleotide binding]; other site 657322000525 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 657322000526 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657322000527 Probable Catalytic site; other site 657322000528 metal-binding site 657322000529 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657322000530 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 657322000531 Probable Catalytic site; other site 657322000532 metal-binding site 657322000533 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657322000534 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 657322000535 Probable Catalytic site; other site 657322000536 metal-binding site 657322000537 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 657322000538 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 657322000539 substrate binding site; other site 657322000540 tetramer interface; other site 657322000541 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 657322000542 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 657322000543 NADP binding site [chemical binding]; other site 657322000544 active site 657322000545 putative substrate binding site [chemical binding]; other site 657322000546 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657322000547 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 657322000548 active site 657322000549 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 657322000550 FeoA domain; Region: FeoA; pfam04023 657322000551 FeoA domain; Region: FeoA; pfam04023 657322000552 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 657322000553 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 657322000554 G1 box; other site 657322000555 GTP/Mg2+ binding site [chemical binding]; other site 657322000556 Switch I region; other site 657322000557 G2 box; other site 657322000558 G3 box; other site 657322000559 Switch II region; other site 657322000560 G4 box; other site 657322000561 G5 box; other site 657322000562 Nucleoside recognition; Region: Gate; pfam07670 657322000563 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 657322000564 Nucleoside recognition; Region: Gate; pfam07670 657322000565 Virus attachment protein p12 family; Region: P12; pfam12669 657322000566 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657322000567 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 657322000568 non-specific DNA interactions [nucleotide binding]; other site 657322000569 DNA binding site [nucleotide binding] 657322000570 sequence specific DNA binding site [nucleotide binding]; other site 657322000571 putative cAMP binding site [chemical binding]; other site 657322000572 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 657322000573 active site 657322000574 catalytic triad [active] 657322000575 oxyanion hole [active] 657322000576 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657322000577 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 657322000578 acyl-activating enzyme (AAE) consensus motif; other site 657322000579 AMP binding site [chemical binding]; other site 657322000580 active site 657322000581 CoA binding site [chemical binding]; other site 657322000582 Ferredoxin [Energy production and conversion]; Region: COG1146 657322000583 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657322000584 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657322000585 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657322000586 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 657322000587 glycogen branching enzyme; Provisional; Region: PRK12313 657322000588 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 657322000589 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 657322000590 active site 657322000591 catalytic site [active] 657322000592 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 657322000593 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 657322000594 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657322000595 active site 657322000596 catalytic site [active] 657322000597 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 657322000598 HTH domain; Region: HTH_11; pfam08279 657322000599 3H domain; Region: 3H; pfam02829 657322000600 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657322000601 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322000602 metal binding site [ion binding]; metal-binding site 657322000603 active site 657322000604 I-site; other site 657322000605 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 657322000606 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 657322000607 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657322000608 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657322000609 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 657322000610 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657322000611 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 657322000612 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 657322000613 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657322000614 catalytic residue [active] 657322000615 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 657322000616 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 657322000617 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657322000618 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 657322000619 L-aspartate oxidase; Provisional; Region: PRK06175 657322000620 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 657322000621 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 657322000622 dimerization interface [polypeptide binding]; other site 657322000623 putative DNA binding site [nucleotide binding]; other site 657322000624 putative Zn2+ binding site [ion binding]; other site 657322000625 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657322000626 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657322000627 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 657322000628 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 657322000629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 657322000630 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657322000631 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 657322000632 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 657322000633 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 657322000634 FeS/SAM binding site; other site 657322000635 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 657322000636 Chromate transporter; Region: Chromate_transp; pfam02417 657322000637 Chromate transporter; Region: Chromate_transp; pfam02417 657322000638 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322000639 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 657322000640 catalytic residues [active] 657322000641 catalytic nucleophile [active] 657322000642 Recombinase; Region: Recombinase; pfam07508 657322000643 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322000644 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657322000645 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 657322000646 active site 657322000647 phosphorylation site [posttranslational modification] 657322000648 intermolecular recognition site; other site 657322000649 dimerization interface [polypeptide binding]; other site 657322000650 LytTr DNA-binding domain; Region: LytTR; cl04498 657322000651 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 657322000652 MgtE intracellular N domain; Region: MgtE_N; pfam03448 657322000653 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 657322000654 Divalent cation transporter; Region: MgtE; pfam01769 657322000655 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657322000656 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657322000657 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657322000658 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 657322000659 FMN-binding domain; Region: FMN_bind; cl01081 657322000660 FMN-binding domain; Region: FMN_bind; cl01081 657322000661 FMN-binding domain; Region: FMN_bind; cl01081 657322000662 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322000663 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 657322000664 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 657322000665 active site 657322000666 putative catalytic site [active] 657322000667 DNA binding site [nucleotide binding] 657322000668 putative phosphate binding site [ion binding]; other site 657322000669 metal binding site A [ion binding]; metal-binding site 657322000670 AP binding site [nucleotide binding]; other site 657322000671 metal binding site B [ion binding]; metal-binding site 657322000672 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 657322000673 dipeptidase PepV; Reviewed; Region: PRK07318 657322000674 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 657322000675 active site 657322000676 metal binding site [ion binding]; metal-binding site 657322000677 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 657322000678 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 657322000679 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 657322000680 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657322000681 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657322000682 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 657322000683 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 657322000684 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 657322000685 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 657322000686 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; cl17220 657322000687 AsnC family; Region: AsnC_trans_reg; pfam01037 657322000688 hypothetical protein; Validated; Region: PRK07682 657322000689 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 657322000690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322000691 homodimer interface [polypeptide binding]; other site 657322000692 catalytic residue [active] 657322000693 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 657322000694 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657322000695 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 657322000696 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 657322000697 active site 657322000698 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 657322000699 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 657322000700 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 657322000701 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 657322000702 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 657322000703 23S rRNA binding site [nucleotide binding]; other site 657322000704 L21 binding site [polypeptide binding]; other site 657322000705 L13 binding site [polypeptide binding]; other site 657322000706 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657322000707 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 657322000708 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657322000709 DNA topoisomerase I; Validated; Region: PRK05582 657322000710 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 657322000711 active site 657322000712 interdomain interaction site; other site 657322000713 putative metal-binding site [ion binding]; other site 657322000714 nucleotide binding site [chemical binding]; other site 657322000715 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 657322000716 domain I; other site 657322000717 DNA binding groove [nucleotide binding] 657322000718 phosphate binding site [ion binding]; other site 657322000719 domain II; other site 657322000720 domain III; other site 657322000721 nucleotide binding site [chemical binding]; other site 657322000722 catalytic site [active] 657322000723 domain IV; other site 657322000724 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 657322000725 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 657322000726 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 657322000727 Glucose inhibited division protein A; Region: GIDA; pfam01134 657322000728 putative phosphate acyltransferase; Provisional; Region: PRK05331 657322000729 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 657322000730 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 657322000731 dimerization interface [polypeptide binding]; other site 657322000732 active site 657322000733 metal binding site [ion binding]; metal-binding site 657322000734 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 657322000735 dsRNA binding site [nucleotide binding]; other site 657322000736 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 657322000737 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 657322000738 Walker A/P-loop; other site 657322000739 ATP binding site [chemical binding]; other site 657322000740 Q-loop/lid; other site 657322000741 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 657322000742 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 657322000743 ABC transporter signature motif; other site 657322000744 Walker B; other site 657322000745 D-loop; other site 657322000746 H-loop/switch region; other site 657322000747 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 657322000748 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 657322000749 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 657322000750 P loop; other site 657322000751 GTP binding site [chemical binding]; other site 657322000752 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 657322000753 active site 657322000754 dimerization interface [polypeptide binding]; other site 657322000755 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 657322000756 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 657322000757 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 657322000758 active site 657322000759 (T/H)XGH motif; other site 657322000760 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 657322000761 Zn2+ binding site [ion binding]; other site 657322000762 Mg2+ binding site [ion binding]; other site 657322000763 Transcriptional regulator [Transcription]; Region: LytR; COG1316 657322000764 Oligomerisation domain; Region: Oligomerisation; pfam02410 657322000765 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 657322000766 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 657322000767 HIGH motif; other site 657322000768 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657322000769 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657322000770 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657322000771 active site 657322000772 KMSKS motif; other site 657322000773 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 657322000774 tRNA binding surface [nucleotide binding]; other site 657322000775 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 657322000776 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 657322000777 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 657322000778 active site 657322000779 motif I; other site 657322000780 motif II; other site 657322000781 elongation factor P; Validated; Region: PRK00529 657322000782 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 657322000783 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 657322000784 RNA binding site [nucleotide binding]; other site 657322000785 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 657322000786 RNA binding site [nucleotide binding]; other site 657322000787 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 657322000788 active site 657322000789 catalytic triad [active] 657322000790 oxyanion hole [active] 657322000791 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 657322000792 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 657322000793 Potassium binding sites [ion binding]; other site 657322000794 Cesium cation binding sites [ion binding]; other site 657322000795 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 657322000796 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 657322000797 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657322000798 catalytic residue [active] 657322000799 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 657322000800 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 657322000801 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 657322000802 Ligand Binding Site [chemical binding]; other site 657322000803 competence damage-inducible protein A; Provisional; Region: PRK00549 657322000804 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 657322000805 putative MPT binding site; other site 657322000806 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 657322000807 Competence-damaged protein; Region: CinA; cl00666 657322000808 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 657322000809 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 657322000810 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 657322000811 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 657322000812 active site 657322000813 DNA binding site [nucleotide binding] 657322000814 Int/Topo IB signature motif; other site 657322000815 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322000816 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322000817 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322000818 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322000819 MgtE intracellular N domain; Region: MgtE_N; pfam03448 657322000820 FOG: CBS domain [General function prediction only]; Region: COG0517 657322000821 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 657322000822 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 657322000823 polyphosphate kinase; Provisional; Region: PRK05443 657322000824 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 657322000825 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 657322000826 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 657322000827 putative active site [active] 657322000828 catalytic site [active] 657322000829 Catalytic C-terminal domain, second repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C2_unchar; cd09169 657322000830 putative domain interface [polypeptide binding]; other site 657322000831 putative active site [active] 657322000832 catalytic site [active] 657322000833 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657322000834 Zn2+ binding site [ion binding]; other site 657322000835 Mg2+ binding site [ion binding]; other site 657322000836 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 657322000837 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 657322000838 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 657322000839 putative active site [active] 657322000840 catalytic site [active] 657322000841 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 657322000842 putative active site [active] 657322000843 catalytic site [active] 657322000844 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 657322000845 PLD-like domain; Region: PLDc_2; pfam13091 657322000846 putative active site [active] 657322000847 catalytic site [active] 657322000848 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 657322000849 PLD-like domain; Region: PLDc_2; pfam13091 657322000850 putative active site [active] 657322000851 catalytic site [active] 657322000852 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322000853 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 657322000854 dimerization interface [polypeptide binding]; other site 657322000855 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 657322000856 dimer interface [polypeptide binding]; other site 657322000857 phosphorylation site [posttranslational modification] 657322000858 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 657322000859 ATP binding site [chemical binding]; other site 657322000860 Mg2+ binding site [ion binding]; other site 657322000861 G-X-G motif; other site 657322000862 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 657322000863 Protein of unknown function (DUF975); Region: DUF975; cl10504 657322000864 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 657322000865 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657322000866 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322000867 metal binding site [ion binding]; metal-binding site 657322000868 active site 657322000869 I-site; other site 657322000870 Predicted transcriptional regulator [Transcription]; Region: COG1959 657322000871 Transcriptional regulator; Region: Rrf2; pfam02082 657322000872 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 657322000873 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 657322000874 FAD binding site [chemical binding]; other site 657322000875 homotetramer interface [polypeptide binding]; other site 657322000876 substrate binding pocket [chemical binding]; other site 657322000877 catalytic base [active] 657322000878 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 657322000879 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 657322000880 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 657322000881 Rubredoxin; Region: Rubredoxin; pfam00301 657322000882 iron binding site [ion binding]; other site 657322000883 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 657322000884 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657322000885 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657322000886 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12364 657322000887 ATP cone domain; Region: ATP-cone; pfam03477 657322000888 Class I ribonucleotide reductase; Region: RNR_I; cd01679 657322000889 active site 657322000890 dimer interface [polypeptide binding]; other site 657322000891 catalytic residues [active] 657322000892 effector binding site; other site 657322000893 R2 peptide binding site; other site 657322000894 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 657322000895 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 657322000896 dimer interface [polypeptide binding]; other site 657322000897 putative radical transfer pathway; other site 657322000898 diiron center [ion binding]; other site 657322000899 tyrosyl radical; other site 657322000900 Nitroreductase family; Region: Nitroreductase; pfam00881 657322000901 FMN binding site [chemical binding]; other site 657322000902 dimer interface [polypeptide binding]; other site 657322000903 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 657322000904 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657322000905 Flavodoxin domain; Region: Flavodoxin_5; cl17428 657322000906 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 657322000907 catalytic residues [active] 657322000908 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 657322000909 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657322000910 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 657322000911 Ferritin-like domain; Region: Ferritin; pfam00210 657322000912 ferroxidase diiron center [ion binding]; other site 657322000913 FMN-binding domain; Region: FMN_bind; pfam04205 657322000914 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 657322000915 ATP binding site [chemical binding]; other site 657322000916 substrate binding site [chemical binding]; other site 657322000917 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 657322000918 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 657322000919 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657322000920 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657322000921 Predicted ATPase [General function prediction only]; Region: COG3910 657322000922 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322000923 Walker A/P-loop; other site 657322000924 ATP binding site [chemical binding]; other site 657322000925 Q-loop/lid; other site 657322000926 ABC transporter signature motif; other site 657322000927 Walker B; other site 657322000928 D-loop; other site 657322000929 H-loop/switch region; other site 657322000930 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 657322000931 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 657322000932 YodL-like; Region: YodL; pfam14191 657322000933 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; cl02788 657322000934 Recombinase; Region: Recombinase; pfam07508 657322000935 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322000936 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657322000937 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657322000938 hypothetical protein; Validated; Region: PRK08116 657322000939 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 657322000940 Walker A motif; other site 657322000941 ATP binding site [chemical binding]; other site 657322000942 Walker B motif; other site 657322000943 arginine finger; other site 657322000944 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 657322000945 T-DNA border endonuclease VirD1; Region: VirD1; cl17530 657322000946 Helix-turn-helix domain; Region: HTH_16; pfam12645 657322000947 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657322000948 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 657322000949 DNA binding residues [nucleotide binding] 657322000950 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 657322000951 Penicillinase repressor; Region: Pencillinase_R; pfam03965 657322000952 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 657322000953 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322000954 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657322000955 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 657322000956 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 657322000957 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 657322000958 ATP binding site [chemical binding]; other site 657322000959 Mg2+ binding site [ion binding]; other site 657322000960 G-X-G motif; other site 657322000961 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 657322000962 anti sigma factor interaction site; other site 657322000963 regulatory phosphorylation site [posttranslational modification]; other site 657322000964 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 657322000965 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 657322000966 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657322000967 active site 657322000968 HIGH motif; other site 657322000969 nucleotide binding site [chemical binding]; other site 657322000970 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657322000971 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 657322000972 active site 657322000973 KMSKS motif; other site 657322000974 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 657322000975 tRNA binding surface [nucleotide binding]; other site 657322000976 anticodon binding site; other site 657322000977 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 657322000978 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657322000979 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 657322000980 active site 657322000981 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657322000982 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 657322000983 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 657322000984 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 657322000985 FAD binding site [chemical binding]; other site 657322000986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657322000987 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657322000988 HflX GTPase family; Region: HflX; cd01878 657322000989 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 657322000990 G1 box; other site 657322000991 GTP/Mg2+ binding site [chemical binding]; other site 657322000992 Switch I region; other site 657322000993 G2 box; other site 657322000994 G3 box; other site 657322000995 Switch II region; other site 657322000996 G4 box; other site 657322000997 G5 box; other site 657322000998 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 657322000999 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 657322001000 putative DNA binding site [nucleotide binding]; other site 657322001001 putative Zn2+ binding site [ion binding]; other site 657322001002 AsnC family; Region: AsnC_trans_reg; pfam01037 657322001003 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 657322001004 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657322001005 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 657322001006 Probable Catalytic site; other site 657322001007 metal-binding site 657322001008 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 657322001009 ArsC family; Region: ArsC; pfam03960 657322001010 catalytic residue [active] 657322001011 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 657322001012 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 657322001013 DNA polymerase I; Region: pola; TIGR00593 657322001014 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 657322001015 active site 657322001016 metal binding site 1 [ion binding]; metal-binding site 657322001017 putative 5' ssDNA interaction site; other site 657322001018 metal binding site 3; metal-binding site 657322001019 metal binding site 2 [ion binding]; metal-binding site 657322001020 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 657322001021 putative DNA binding site [nucleotide binding]; other site 657322001022 putative metal binding site [ion binding]; other site 657322001023 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 657322001024 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 657322001025 active site 657322001026 DNA binding site [nucleotide binding] 657322001027 catalytic site [active] 657322001028 UGMP family protein; Validated; Region: PRK09604 657322001029 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 657322001030 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 657322001031 FMN binding site [chemical binding]; other site 657322001032 dimer interface [polypeptide binding]; other site 657322001033 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 657322001034 putative substrate binding site [chemical binding]; other site 657322001035 putative ATP binding site [chemical binding]; other site 657322001036 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 657322001037 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 657322001038 G1 box; other site 657322001039 putative GEF interaction site [polypeptide binding]; other site 657322001040 GTP/Mg2+ binding site [chemical binding]; other site 657322001041 Switch I region; other site 657322001042 G2 box; other site 657322001043 G3 box; other site 657322001044 Switch II region; other site 657322001045 G4 box; other site 657322001046 G5 box; other site 657322001047 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 657322001048 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 657322001049 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 657322001050 YacP-like NYN domain; Region: NYN_YacP; pfam05991 657322001051 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 657322001052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 657322001053 TraX protein; Region: TraX; pfam05857 657322001054 Cupin domain; Region: Cupin_2; cl17218 657322001055 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322001056 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657322001057 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322001058 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 657322001059 Transcriptional regulators [Transcription]; Region: FadR; COG2186 657322001060 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657322001061 DNA-binding site [nucleotide binding]; DNA binding site 657322001062 FCD domain; Region: FCD; pfam07729 657322001063 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 657322001064 phosphodiesterase; Provisional; Region: PRK12704 657322001065 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 657322001066 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 657322001067 Catalytic site [active] 657322001068 Collagen binding domain; Region: Collagen_bind; pfam05737 657322001069 Cna protein B-type domain; Region: Cna_B; pfam05738 657322001070 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 657322001071 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 657322001072 Cna protein B-type domain; Region: Cna_B; pfam05738 657322001073 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 657322001074 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 657322001075 active site 657322001076 catalytic site [active] 657322001077 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 657322001078 RNase E interface [polypeptide binding]; other site 657322001079 trimer interface [polypeptide binding]; other site 657322001080 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 657322001081 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 657322001082 RNA binding site [nucleotide binding]; other site 657322001083 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 657322001084 16S/18S rRNA binding site [nucleotide binding]; other site 657322001085 S13e-L30e interaction site [polypeptide binding]; other site 657322001086 25S rRNA binding site [nucleotide binding]; other site 657322001087 CAAX protease self-immunity; Region: Abi; pfam02517 657322001088 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 657322001089 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; cl17251 657322001090 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 657322001091 SEC-C motif; Region: SEC-C; pfam02810 657322001092 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 657322001093 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 657322001094 metal binding site [ion binding]; metal-binding site 657322001095 dimer interface [polypeptide binding]; other site 657322001096 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 657322001097 Predicted dehydrogenase [General function prediction only]; Region: COG0579 657322001098 hydroxyglutarate oxidase; Provisional; Region: PRK11728 657322001099 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 657322001100 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657322001101 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 657322001102 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 657322001103 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 657322001104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322001105 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 657322001106 Walker A/P-loop; other site 657322001107 ATP binding site [chemical binding]; other site 657322001108 Q-loop/lid; other site 657322001109 ABC transporter signature motif; other site 657322001110 Walker B; other site 657322001111 D-loop; other site 657322001112 H-loop/switch region; other site 657322001113 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 657322001114 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 657322001115 dimer interface [polypeptide binding]; other site 657322001116 conserved gate region; other site 657322001117 putative PBP binding loops; other site 657322001118 ABC-ATPase subunit interface; other site 657322001119 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 657322001120 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 657322001121 MOSC domain; Region: MOSC; pfam03473 657322001122 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 657322001123 MPT binding site; other site 657322001124 trimer interface [polypeptide binding]; other site 657322001125 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 657322001126 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 657322001127 FeS/SAM binding site; other site 657322001128 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 657322001129 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 657322001130 trimer interface [polypeptide binding]; other site 657322001131 dimer interface [polypeptide binding]; other site 657322001132 putative active site [active] 657322001133 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 657322001134 putative MPT binding site; other site 657322001135 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 657322001136 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 657322001137 dimer interface [polypeptide binding]; other site 657322001138 putative functional site; other site 657322001139 putative MPT binding site; other site 657322001140 hypothetical protein; Provisional; Region: PRK09947 657322001141 putative oxidoreductase; Provisional; Region: PRK09849 657322001142 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 657322001143 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 657322001144 hypothetical protein; Provisional; Region: PRK09898 657322001145 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657322001146 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657322001147 FMN-binding domain; Region: FMN_bind; pfam04205 657322001148 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 657322001149 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 657322001150 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 657322001151 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 657322001152 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 657322001153 active site 657322001154 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 657322001155 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 657322001156 Na2 binding site [ion binding]; other site 657322001157 putative substrate binding site 1 [chemical binding]; other site 657322001158 Na binding site 1 [ion binding]; other site 657322001159 putative substrate binding site 2 [chemical binding]; other site 657322001160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 657322001161 hypothetical protein; Provisional; Region: PRK13663 657322001162 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 657322001163 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 657322001164 active site 657322001165 phosphorylation site [posttranslational modification] 657322001166 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 657322001167 active site 657322001168 P-loop; other site 657322001169 phosphorylation site [posttranslational modification] 657322001170 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 657322001171 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 657322001172 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 657322001173 putative substrate binding site [chemical binding]; other site 657322001174 putative ATP binding site [chemical binding]; other site 657322001175 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657322001176 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 657322001177 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657322001178 Peptidase family C69; Region: Peptidase_C69; pfam03577 657322001179 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; cl17432 657322001180 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 657322001181 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657322001182 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 657322001183 ligand binding site [chemical binding]; other site 657322001184 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 657322001185 putative switch regulator; other site 657322001186 non-specific DNA interactions [nucleotide binding]; other site 657322001187 DNA binding site [nucleotide binding] 657322001188 sequence specific DNA binding site [nucleotide binding]; other site 657322001189 putative cAMP binding site [chemical binding]; other site 657322001190 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 657322001191 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 657322001192 Ligand binding site; other site 657322001193 Putative Catalytic site; other site 657322001194 DXD motif; other site 657322001195 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 657322001196 QueT transporter; Region: QueT; pfam06177 657322001197 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657322001198 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 657322001199 motif II; other site 657322001200 6-phosphofructokinase; Provisional; Region: PRK03202 657322001201 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657322001202 active site 657322001203 ADP/pyrophosphate binding site [chemical binding]; other site 657322001204 dimerization interface [polypeptide binding]; other site 657322001205 allosteric effector site; other site 657322001206 fructose-1,6-bisphosphate binding site; other site 657322001207 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 657322001208 peptidase T; Region: peptidase-T; TIGR01882 657322001209 metal binding site [ion binding]; metal-binding site 657322001210 dimer interface [polypeptide binding]; other site 657322001211 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 657322001212 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 657322001213 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 657322001214 ParB-like nuclease domain; Region: ParBc; pfam02195 657322001215 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 657322001216 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 657322001217 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657322001218 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657322001219 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 657322001220 Walker A/P-loop; other site 657322001221 ATP binding site [chemical binding]; other site 657322001222 Q-loop/lid; other site 657322001223 ABC transporter signature motif; other site 657322001224 Walker B; other site 657322001225 D-loop; other site 657322001226 H-loop/switch region; other site 657322001227 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322001228 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 657322001229 dimerization interface [polypeptide binding]; other site 657322001230 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 657322001231 dimer interface [polypeptide binding]; other site 657322001232 phosphorylation site [posttranslational modification] 657322001233 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 657322001234 ATP binding site [chemical binding]; other site 657322001235 Mg2+ binding site [ion binding]; other site 657322001236 G-X-G motif; other site 657322001237 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322001238 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 657322001239 active site 657322001240 phosphorylation site [posttranslational modification] 657322001241 intermolecular recognition site; other site 657322001242 dimerization interface [polypeptide binding]; other site 657322001243 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 657322001244 DNA binding site [nucleotide binding] 657322001245 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 657322001246 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cd00188 657322001247 active site 657322001248 metal binding site [ion binding]; metal-binding site 657322001249 AAA domain; Region: AAA_25; pfam13481 657322001250 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 657322001251 Walker A motif; other site 657322001252 ATP binding site [chemical binding]; other site 657322001253 Walker B motif; other site 657322001254 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657322001255 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 657322001256 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 657322001257 Domain of unknown function (DUF1287); Region: DUF1287; cl01519 657322001258 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 657322001259 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 657322001260 intersubunit interface [polypeptide binding]; other site 657322001261 active site 657322001262 zinc binding site [ion binding]; other site 657322001263 Na+ binding site [ion binding]; other site 657322001264 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657322001265 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 657322001266 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657322001267 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657322001268 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 657322001269 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 657322001270 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 657322001271 thiamine phosphate binding site [chemical binding]; other site 657322001272 active site 657322001273 pyrophosphate binding site [ion binding]; other site 657322001274 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 657322001275 substrate binding site [chemical binding]; other site 657322001276 multimerization interface [polypeptide binding]; other site 657322001277 ATP binding site [chemical binding]; other site 657322001278 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 657322001279 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 657322001280 N-terminal domain of cellobiose phosphorylase (CBP) and similar proteins; Region: GH94N_CBP_like; cd11754 657322001281 catalytic domain interface [polypeptide binding]; other site 657322001282 homodimer interface [polypeptide binding]; other site 657322001283 putative active site [active] 657322001284 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657322001285 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657322001286 DNA binding site [nucleotide binding] 657322001287 domain linker motif; other site 657322001288 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 657322001289 dimerization interface [polypeptide binding]; other site 657322001290 ligand binding site [chemical binding]; other site 657322001291 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657322001292 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 657322001293 dimer interface [polypeptide binding]; other site 657322001294 conserved gate region; other site 657322001295 putative PBP binding loops; other site 657322001296 ABC-ATPase subunit interface; other site 657322001297 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657322001298 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 657322001299 dimer interface [polypeptide binding]; other site 657322001300 conserved gate region; other site 657322001301 putative PBP binding loops; other site 657322001302 ABC-ATPase subunit interface; other site 657322001303 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 657322001304 active site 657322001305 catalytic residues [active] 657322001306 metal binding site [ion binding]; metal-binding site 657322001307 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 657322001308 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 657322001309 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 657322001310 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322001311 Walker A/P-loop; other site 657322001312 ATP binding site [chemical binding]; other site 657322001313 Q-loop/lid; other site 657322001314 ABC transporter signature motif; other site 657322001315 Walker B; other site 657322001316 D-loop; other site 657322001317 H-loop/switch region; other site 657322001318 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 657322001319 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 657322001320 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 657322001321 Glycoprotease family; Region: Peptidase_M22; pfam00814 657322001322 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 657322001323 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657322001324 active site 657322001325 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322001326 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657322001327 putative DNA-binding protein; Validated; Region: PRK00118 657322001328 signal recognition particle protein; Provisional; Region: PRK10867 657322001329 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 657322001330 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 657322001331 P loop; other site 657322001332 GTP binding site [chemical binding]; other site 657322001333 Signal peptide binding domain; Region: SRP_SPB; pfam02978 657322001334 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 657322001335 KH domain; Region: KH_4; pfam13083 657322001336 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 657322001337 RimM N-terminal domain; Region: RimM; pfam01782 657322001338 PRC-barrel domain; Region: PRC; pfam05239 657322001339 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 657322001340 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 657322001341 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657322001342 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657322001343 Coenzyme A binding pocket [chemical binding]; other site 657322001344 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 657322001345 dimerization domain swap beta strand [polypeptide binding]; other site 657322001346 regulatory protein interface [polypeptide binding]; other site 657322001347 active site 657322001348 regulatory phosphorylation site [posttranslational modification]; other site 657322001349 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 657322001350 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 657322001351 GIY-YIG motif/motif A; other site 657322001352 active site 657322001353 catalytic site [active] 657322001354 putative DNA binding site [nucleotide binding]; other site 657322001355 metal binding site [ion binding]; metal-binding site 657322001356 UvrB/uvrC motif; Region: UVR; pfam02151 657322001357 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 657322001358 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 657322001359 DNA binding site [nucleotide binding] 657322001360 Predicted membrane protein [Function unknown]; Region: COG4709 657322001361 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 657322001362 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 657322001363 Predicted transcriptional regulators [Transcription]; Region: COG1695 657322001364 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 657322001365 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657322001366 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 657322001367 substrate binding pocket [chemical binding]; other site 657322001368 membrane-bound complex binding site; other site 657322001369 hinge residues; other site 657322001370 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 657322001371 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 657322001372 Walker A/P-loop; other site 657322001373 ATP binding site [chemical binding]; other site 657322001374 Q-loop/lid; other site 657322001375 ABC transporter signature motif; other site 657322001376 Walker B; other site 657322001377 D-loop; other site 657322001378 H-loop/switch region; other site 657322001379 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 657322001380 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 657322001381 dimer interface [polypeptide binding]; other site 657322001382 conserved gate region; other site 657322001383 putative PBP binding loops; other site 657322001384 ABC-ATPase subunit interface; other site 657322001385 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 657322001386 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 657322001387 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 657322001388 putative substrate translocation pore; other site 657322001389 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657322001390 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 657322001391 homodimer interface [polypeptide binding]; other site 657322001392 substrate-cofactor binding pocket; other site 657322001393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322001394 catalytic residue [active] 657322001395 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 657322001396 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 657322001397 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 657322001398 Walker A motif; other site 657322001399 ATP binding site [chemical binding]; other site 657322001400 Walker B motif; other site 657322001401 arginine finger; other site 657322001402 Peptidase family M41; Region: Peptidase_M41; pfam01434 657322001403 2-isopropylmalate synthase; Validated; Region: PRK03739 657322001404 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 657322001405 active site 657322001406 catalytic residues [active] 657322001407 metal binding site [ion binding]; metal-binding site 657322001408 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 657322001409 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 657322001410 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 657322001411 substrate binding site [chemical binding]; other site 657322001412 ligand binding site [chemical binding]; other site 657322001413 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 657322001414 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 657322001415 substrate binding site [chemical binding]; other site 657322001416 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 657322001417 tartrate dehydrogenase; Region: TTC; TIGR02089 657322001418 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 657322001419 dimer interface [polypeptide binding]; other site 657322001420 conserved gate region; other site 657322001421 putative PBP binding loops; other site 657322001422 ABC-ATPase subunit interface; other site 657322001423 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657322001424 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 657322001425 substrate binding pocket [chemical binding]; other site 657322001426 membrane-bound complex binding site; other site 657322001427 hinge residues; other site 657322001428 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 657322001429 FMN binding site [chemical binding]; other site 657322001430 dimer interface [polypeptide binding]; other site 657322001431 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 657322001432 Uncharacterized conserved protein [Function unknown]; Region: COG2966 657322001433 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 657322001434 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 657322001435 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 657322001436 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 657322001437 dimer interface [polypeptide binding]; other site 657322001438 conserved gate region; other site 657322001439 ABC-ATPase subunit interface; other site 657322001440 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657322001441 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 657322001442 homodimer interface [polypeptide binding]; other site 657322001443 substrate-cofactor binding pocket; other site 657322001444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322001445 catalytic residue [active] 657322001446 Homoserine O-succinyltransferase; Region: HTS; pfam04204 657322001447 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 657322001448 proposed active site lysine [active] 657322001449 conserved cys residue [active] 657322001450 EDD domain protein, DegV family; Region: DegV; TIGR00762 657322001451 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 657322001452 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 657322001453 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 657322001454 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 657322001455 4Fe-4S binding domain; Region: Fer4; pfam00037 657322001456 4Fe-4S binding domain; Region: Fer4; pfam00037 657322001457 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 657322001458 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 657322001459 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657322001460 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 657322001461 FeS/SAM binding site; other site 657322001462 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657322001463 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 657322001464 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 657322001465 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 657322001466 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 657322001467 active site 657322001468 dimer interface [polypeptide binding]; other site 657322001469 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 657322001470 dimer interface [polypeptide binding]; other site 657322001471 active site 657322001472 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 657322001473 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 657322001474 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 657322001475 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 657322001476 Protein of unknown function (DUF512); Region: DUF512; pfam04459 657322001477 GTP-binding protein Der; Reviewed; Region: PRK00093 657322001478 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 657322001479 G1 box; other site 657322001480 GTP/Mg2+ binding site [chemical binding]; other site 657322001481 Switch I region; other site 657322001482 G2 box; other site 657322001483 Switch II region; other site 657322001484 G3 box; other site 657322001485 G4 box; other site 657322001486 G5 box; other site 657322001487 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 657322001488 G1 box; other site 657322001489 GTP/Mg2+ binding site [chemical binding]; other site 657322001490 Switch I region; other site 657322001491 G2 box; other site 657322001492 G3 box; other site 657322001493 Switch II region; other site 657322001494 G4 box; other site 657322001495 G5 box; other site 657322001496 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 657322001497 PBP superfamily domain; Region: PBP_like_2; cl17296 657322001498 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657322001499 putative efflux protein, MATE family; Region: matE; TIGR00797 657322001500 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 657322001501 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 657322001502 putative sugar binding sites [chemical binding]; other site 657322001503 Q-X-W motif; other site 657322001504 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 657322001505 active site 657322001506 substrate binding site [chemical binding]; other site 657322001507 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 657322001508 FMN binding site [chemical binding]; other site 657322001509 putative catalytic residues [active] 657322001510 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...; Region: AlaRS_core; cd00673 657322001511 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 657322001512 motif 1; other site 657322001513 active site 657322001514 motif 2; other site 657322001515 motif 3; other site 657322001516 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 657322001517 DHHA1 domain; Region: DHHA1; pfam02272 657322001518 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 657322001519 nucleotide binding site/active site [active] 657322001520 HIT family signature motif; other site 657322001521 catalytic residue [active] 657322001522 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657322001523 active site 657322001524 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 657322001525 Competence protein; Region: Competence; pfam03772 657322001526 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 657322001527 DNA polymerase III, delta subunit; Region: holA; TIGR01128 657322001528 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 657322001529 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cd00188 657322001530 active site 657322001531 metal binding site [ion binding]; metal-binding site 657322001532 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 657322001533 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657322001534 MarR family; Region: MarR; pfam01047 657322001535 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 657322001536 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 657322001537 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 657322001538 FeS/SAM binding site; other site 657322001539 Predicted membrane protein [Function unknown]; Region: COG2364 657322001540 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 657322001541 Isochorismatase family; Region: Isochorismatase; pfam00857 657322001542 catalytic triad [active] 657322001543 conserved cis-peptide bond; other site 657322001544 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 657322001545 putative ADP-ribose binding site [chemical binding]; other site 657322001546 putative active site [active] 657322001547 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 657322001548 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 657322001549 DNA binding residues [nucleotide binding] 657322001550 dimer interface [polypeptide binding]; other site 657322001551 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 657322001552 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 657322001553 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 657322001554 non-heme iron binding site [ion binding]; other site 657322001555 dimer interface [polypeptide binding]; other site 657322001556 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 657322001557 non-heme iron binding site [ion binding]; other site 657322001558 Protein of unknown function (DUF523); Region: DUF523; pfam04463 657322001559 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 657322001560 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 657322001561 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 657322001562 Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in...; Region: PTH2_family; cd02407 657322001563 peptidyl-tRNA hydrolase; Provisional; Region: PRK04322 657322001564 dimer interface [polypeptide binding]; other site 657322001565 putative active site [active] 657322001566 Uncharacterized conserved protein [Function unknown]; Region: COG1479 657322001567 Protein of unknown function DUF262; Region: DUF262; pfam03235 657322001568 Uncharacterized conserved protein [Function unknown]; Region: COG3472 657322001569 purine nucleoside phosphorylase; Provisional; Region: PRK08202 657322001570 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 657322001571 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 657322001572 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 657322001573 putative dimer interface [polypeptide binding]; other site 657322001574 Formaldehyde dehydrogenases; Region: FDH_like; cd05278 657322001575 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 657322001576 catalytic Zn binding site [ion binding]; other site 657322001577 NAD(P) binding site [chemical binding]; other site 657322001578 structural Zn binding site [ion binding]; other site 657322001579 methionine sulfoxide reductase A; Provisional; Region: PRK05528 657322001580 Protein of unknown function (DUF554); Region: DUF554; cl00784 657322001581 V-type ATP synthase subunit I; Validated; Region: PRK05771 657322001582 primosome assembly protein PriA; Validated; Region: PRK05580 657322001583 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 657322001584 Zn2+ binding site [ion binding]; other site 657322001585 Mg2+ binding site [ion binding]; other site 657322001586 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 657322001587 nudix motif; other site 657322001588 Methyltransferase domain; Region: Methyltransf_31; pfam13847 657322001589 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 657322001590 S-adenosylmethionine binding site [chemical binding]; other site 657322001591 Methyltransferase domain; Region: Methyltransf_31; pfam13847 657322001592 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 657322001593 S-adenosylmethionine binding site [chemical binding]; other site 657322001594 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657322001595 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 657322001596 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 657322001597 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 657322001598 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 657322001599 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 657322001600 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 657322001601 PemK-like protein; Region: PemK; pfam02452 657322001602 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 657322001603 non-specific DNA binding site [nucleotide binding]; other site 657322001604 salt bridge; other site 657322001605 sequence-specific DNA binding site [nucleotide binding]; other site 657322001606 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 657322001607 non-specific DNA binding site [nucleotide binding]; other site 657322001608 salt bridge; other site 657322001609 sequence-specific DNA binding site [nucleotide binding]; other site 657322001610 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 657322001611 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 657322001612 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 657322001613 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 657322001614 trimer interface [polypeptide binding]; other site 657322001615 active site 657322001616 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 657322001617 catalytic site [active] 657322001618 DNA polymerase IV; Reviewed; Region: PRK03103 657322001619 Y-family of DNA polymerases; Region: PolY; cl12025 657322001620 active site 657322001621 DNA binding site [nucleotide binding] 657322001622 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 657322001623 YolD-like protein; Region: YolD; pfam08863 657322001624 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 657322001625 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 657322001626 non-heme iron binding site [ion binding]; other site 657322001627 dimer interface [polypeptide binding]; other site 657322001628 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 657322001629 non-heme iron binding site [ion binding]; other site 657322001630 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 657322001631 ADP-ribose binding site [chemical binding]; other site 657322001632 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 657322001633 metal ion-dependent adhesion site (MIDAS); other site 657322001634 Uncharacterized conserved protein [Function unknown]; Region: COG0062 657322001635 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657322001636 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657322001637 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 657322001638 Flavodoxin domain; Region: Flavodoxin_5; cl17428 657322001639 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657322001640 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 657322001641 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 657322001642 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 657322001643 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 657322001644 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 657322001645 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 657322001646 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; cl17221 657322001647 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 657322001648 transmembrane helices; other site 657322001649 Membrane transport protein; Region: Mem_trans; cl09117 657322001650 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 657322001651 Na2 binding site [ion binding]; other site 657322001652 putative substrate binding site 1 [chemical binding]; other site 657322001653 Na binding site 1 [ion binding]; other site 657322001654 putative substrate binding site 2 [chemical binding]; other site 657322001655 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657322001656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657322001657 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; cd05466 657322001658 dimerization interface [polypeptide binding]; other site 657322001659 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 657322001660 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 657322001661 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 657322001662 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 657322001663 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 657322001664 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 657322001665 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 657322001666 dimerization interface [polypeptide binding]; other site 657322001667 Histidine kinase; Region: His_kinase; pfam06580 657322001668 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 657322001669 ATP binding site [chemical binding]; other site 657322001670 Mg2+ binding site [ion binding]; other site 657322001671 G-X-G motif; other site 657322001672 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657322001673 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 657322001674 ligand binding site [chemical binding]; other site 657322001675 flexible hinge region; other site 657322001676 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 657322001677 Ferredoxin [Energy production and conversion]; Region: COG1146 657322001678 4Fe-4S binding domain; Region: Fer4_6; pfam12837 657322001679 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 657322001680 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 657322001681 substrate binding pocket [chemical binding]; other site 657322001682 membrane-bound complex binding site; other site 657322001683 hinge residues; other site 657322001684 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 657322001685 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 657322001686 substrate binding pocket [chemical binding]; other site 657322001687 membrane-bound complex binding site; other site 657322001688 hinge residues; other site 657322001689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322001690 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 657322001691 dimer interface [polypeptide binding]; other site 657322001692 phosphorylation site [posttranslational modification] 657322001693 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 657322001694 ATP binding site [chemical binding]; other site 657322001695 Mg2+ binding site [ion binding]; other site 657322001696 G-X-G motif; other site 657322001697 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657322001698 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 657322001699 active site 657322001700 phosphorylation site [posttranslational modification] 657322001701 intermolecular recognition site; other site 657322001702 dimerization interface [polypeptide binding]; other site 657322001703 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657322001704 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 657322001705 active site 657322001706 phosphorylation site [posttranslational modification] 657322001707 intermolecular recognition site; other site 657322001708 dimerization interface [polypeptide binding]; other site 657322001709 RNHCP domain; Region: RNHCP; pfam12647 657322001710 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657322001711 Coenzyme A binding pocket [chemical binding]; other site 657322001712 YoaP-like; Region: YoaP; pfam14268 657322001713 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657322001714 Coenzyme A binding pocket [chemical binding]; other site 657322001715 short chain dehydrogenase; Provisional; Region: PRK06179 657322001716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657322001717 NAD(P) binding site [chemical binding]; other site 657322001718 active site 657322001719 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 657322001720 PAS fold; Region: PAS_3; pfam08447 657322001721 putative active site [active] 657322001722 heme pocket [chemical binding]; other site 657322001723 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322001724 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 657322001725 dimer interface [polypeptide binding]; other site 657322001726 phosphorylation site [posttranslational modification] 657322001727 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 657322001728 ATP binding site [chemical binding]; other site 657322001729 Mg2+ binding site [ion binding]; other site 657322001730 G-X-G motif; other site 657322001731 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 657322001732 Response regulator receiver domain; Region: Response_reg; pfam00072 657322001733 active site 657322001734 phosphorylation site [posttranslational modification] 657322001735 intermolecular recognition site; other site 657322001736 dimerization interface [polypeptide binding]; other site 657322001737 Response regulator receiver domain; Region: Response_reg; pfam00072 657322001738 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 657322001739 active site 657322001740 phosphorylation site [posttranslational modification] 657322001741 intermolecular recognition site; other site 657322001742 dimerization interface [polypeptide binding]; other site 657322001743 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 657322001744 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 657322001745 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 657322001746 Double zinc ribbon; Region: DZR; pfam12773 657322001747 Nucleolar RNA-binding protein, Nop10p family; Region: Nop10p; cl00977 657322001748 Repair protein; Region: Repair_PSII; pfam04536 657322001749 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 657322001750 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657322001751 active site 657322001752 metal binding site [ion binding]; metal-binding site 657322001753 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 657322001754 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 657322001755 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657322001756 Sensory domain found in PocR; Region: PocR; pfam10114 657322001757 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 657322001758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322001759 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657322001760 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322001761 Transposase IS200 like; Region: Y1_Tnp; pfam01797 657322001762 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 657322001763 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657322001764 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 657322001765 P-loop; other site 657322001766 Magnesium ion binding site [ion binding]; other site 657322001767 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 657322001768 Magnesium ion binding site [ion binding]; other site 657322001769 ParB-like nuclease domain; Region: ParBc; pfam02195 657322001770 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 657322001771 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 657322001772 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322001773 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657322001774 putative catalytic residues [active] 657322001775 catalytic nucleophile [active] 657322001776 Recombinase; Region: Recombinase; pfam07508 657322001777 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322001778 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657322001779 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657322001780 Transposase; Region: HTH_Tnp_IS630; pfam01710 657322001781 Homeodomain-like domain; Region: HTH_23; cl17451 657322001782 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657322001783 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657322001784 Walker A/P-loop; other site 657322001785 ATP binding site [chemical binding]; other site 657322001786 Q-loop/lid; other site 657322001787 ABC transporter signature motif; other site 657322001788 Walker B; other site 657322001789 D-loop; other site 657322001790 H-loop/switch region; other site 657322001791 FtsX-like permease family; Region: FtsX; pfam02687 657322001792 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657322001793 FtsX-like permease family; Region: FtsX; pfam02687 657322001794 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657322001795 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657322001796 Walker A/P-loop; other site 657322001797 ATP binding site [chemical binding]; other site 657322001798 Q-loop/lid; other site 657322001799 ABC transporter signature motif; other site 657322001800 Walker B; other site 657322001801 D-loop; other site 657322001802 H-loop/switch region; other site 657322001803 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657322001804 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 657322001805 active site 657322001806 phosphorylation site [posttranslational modification] 657322001807 intermolecular recognition site; other site 657322001808 dimerization interface [polypeptide binding]; other site 657322001809 LytTr DNA-binding domain; Region: LytTR; smart00850 657322001810 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 657322001811 ATP binding site [chemical binding]; other site 657322001812 Mg2+ binding site [ion binding]; other site 657322001813 G-X-G motif; other site 657322001814 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657322001815 Maff2 family; Region: Maff2; pfam12750 657322001816 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657322001817 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322001818 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 657322001819 DNA binding residues [nucleotide binding] 657322001820 Putative zinc-finger; Region: zf-HC2; pfam13490 657322001821 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; cl17257 657322001822 Helix-turn-helix domain; Region: HTH_16; pfam12645 657322001823 T-DNA border endonuclease VirD1; Region: VirD1; cl17530 657322001824 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 657322001825 hypothetical protein; Validated; Region: PRK08116 657322001826 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 657322001827 Walker A motif; other site 657322001828 ATP binding site [chemical binding]; other site 657322001829 Walker B motif; other site 657322001830 arginine finger; other site 657322001831 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657322001832 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; cl02788 657322001833 Recombinase; Region: Recombinase; pfam07508 657322001834 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322001835 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657322001836 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657322001837 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 657322001838 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 657322001839 putative active site [active] 657322001840 putative NTP binding site [chemical binding]; other site 657322001841 putative nucleic acid binding site [nucleotide binding]; other site 657322001842 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322001843 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 657322001844 non-specific DNA binding site [nucleotide binding]; other site 657322001845 salt bridge; other site 657322001846 sequence-specific DNA binding site [nucleotide binding]; other site 657322001847 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 657322001848 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; cl17220 657322001849 putative Zn2+ binding site [ion binding]; other site 657322001850 putative DNA binding site [nucleotide binding]; other site 657322001851 MobA/MobL family; Region: MobA_MobL; pfam03389 657322001852 CHC2 zinc finger; Region: zf-CHC2; cl17510 657322001853 Virulence-associated protein E; Region: VirE; pfam05272 657322001854 Recombinase; Region: Recombinase; pfam07508 657322001855 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322001856 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657322001857 Type III pantothenate kinase; Region: Pan_kinase; cl17198 657322001858 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657322001859 Helix-turn-helix domain; Region: HTH_18; pfam12833 657322001860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322001861 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657322001862 MFS/sugar transport protein; Region: MFS_2; pfam13347 657322001863 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657322001864 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657322001865 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657322001866 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657322001867 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 657322001868 CCC1-related family of proteins; Region: CCC1_like; cl00278 657322001869 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 657322001870 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657322001871 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 657322001872 active site 657322001873 phosphorylation site [posttranslational modification] 657322001874 intermolecular recognition site; other site 657322001875 dimerization interface [polypeptide binding]; other site 657322001876 LytTr DNA-binding domain; Region: LytTR; smart00850 657322001877 Accessory gene regulator B; Region: AgrB; pfam04647 657322001878 Protein of unknown function; Region: DUF3658; pfam12395 657322001879 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322001880 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 657322001881 catalytic residues [active] 657322001882 catalytic nucleophile [active] 657322001883 Recombinase; Region: Recombinase; pfam07508 657322001884 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322001885 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322001886 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657322001887 FMN-binding domain; Region: FMN_bind; pfam04205 657322001888 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 657322001889 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 657322001890 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 657322001891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657322001892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657322001893 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; cd05466 657322001894 dimerization interface [polypeptide binding]; other site 657322001895 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 657322001896 Carbon starvation protein CstA; Region: CstA; pfam02554 657322001897 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 657322001898 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657322001899 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657322001900 LysR substrate binding domain; Region: LysR_substrate; pfam03466 657322001901 dimerization interface [polypeptide binding]; other site 657322001902 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 657322001903 catalytic core [active] 657322001904 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322001905 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657322001906 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 657322001907 AAA domain; Region: AAA_23; pfam13476 657322001908 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 657322001909 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 657322001910 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 657322001911 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 657322001912 DRTGG domain; Region: DRTGG; pfam07085 657322001913 DHHA2 domain; Region: DHHA2; pfam02833 657322001914 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322001915 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 657322001916 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 657322001917 active site 657322001918 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 657322001919 active site 657322001920 HIGH motif; other site 657322001921 nucleotide binding site [chemical binding]; other site 657322001922 active site 657322001923 KMSKS motif; other site 657322001924 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 657322001925 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 657322001926 NAD binding site [chemical binding]; other site 657322001927 sugar binding site [chemical binding]; other site 657322001928 divalent metal binding site [ion binding]; other site 657322001929 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 657322001930 dimer interface [polypeptide binding]; other site 657322001931 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 657322001932 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 657322001933 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 657322001934 active site turn [active] 657322001935 phosphorylation site [posttranslational modification] 657322001936 transcriptional antiterminator BglG; Provisional; Region: PRK09772 657322001937 CAT RNA binding domain; Region: CAT_RBD; smart01061 657322001938 PRD domain; Region: PRD; pfam00874 657322001939 PRD domain; Region: PRD; pfam00874 657322001940 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 657322001941 Uncharacterized conserved protein [Function unknown]; Region: COG2006 657322001942 4Fe-4S binding domain; Region: Fer4; pfam00037 657322001943 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 657322001944 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; cl02915 657322001945 Cl- selectivity filter; other site 657322001946 Cl- binding residues [ion binding]; other site 657322001947 pore gating glutamate residue; other site 657322001948 dimer interface [polypeptide binding]; other site 657322001949 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 657322001950 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 657322001951 TrkA-N domain; Region: TrkA_N; pfam02254 657322001952 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 657322001953 TrkA-N domain; Region: TrkA_N; pfam02254 657322001954 TrkA-C domain; Region: TrkA_C; pfam02080 657322001955 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657322001956 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 657322001957 motif II; other site 657322001958 seryl-tRNA synthetase; Provisional; Region: PRK05431 657322001959 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 657322001960 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...; Region: class_II_aaRS-like_core; cl00268 657322001961 motif 1; other site 657322001962 dimer interface [polypeptide binding]; other site 657322001963 active site 657322001964 motif 2; other site 657322001965 motif 3; other site 657322001966 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 657322001967 ParB-like nuclease domain; Region: ParBc; pfam02195 657322001968 ParB-like nuclease domain; Region: ParB; smart00470 657322001969 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 657322001970 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 657322001971 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 657322001972 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 657322001973 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 657322001974 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 657322001975 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 657322001976 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 657322001977 trmE is a tRNA modification GTPase; Region: trmE; cd04164 657322001978 G1 box; other site 657322001979 GTP/Mg2+ binding site [chemical binding]; other site 657322001980 Switch I region; other site 657322001981 G2 box; other site 657322001982 Switch II region; other site 657322001983 G3 box; other site 657322001984 G4 box; other site 657322001985 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 657322001986 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 657322001987 G-X-X-G motif; other site 657322001988 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 657322001989 RxxxH motif; other site 657322001990 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01315 657322001991 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 657322001992 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 657322001993 ribonuclease P; Reviewed; Region: rnpA; PRK00499 657322001994 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 657322001995 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 657322001996 DnaA N-terminal domain; Region: DnaA_N; pfam11638 657322001997 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 657322001998 Walker A motif; other site 657322001999 ATP binding site [chemical binding]; other site 657322002000 Walker B motif; other site 657322002001 arginine finger; other site 657322002002 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 657322002003 DnaA box-binding interface [nucleotide binding]; other site 657322002004 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 657322002005 RNA binding surface [nucleotide binding]; other site 657322002006 recombination protein F; Reviewed; Region: recF; PRK00064 657322002007 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322002008 Walker A/P-loop; other site 657322002009 ATP binding site [chemical binding]; other site 657322002010 Q-loop/lid; other site 657322002011 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322002012 ABC transporter signature motif; other site 657322002013 Walker B; other site 657322002014 D-loop; other site 657322002015 H-loop/switch region; other site 657322002016 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 657322002017 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 657322002018 ATP binding site [chemical binding]; other site 657322002019 Mg2+ binding site [ion binding]; other site 657322002020 G-X-G motif; other site 657322002021 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 657322002022 anchoring element; other site 657322002023 dimer interface [polypeptide binding]; other site 657322002024 ATP binding site [chemical binding]; other site 657322002025 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 657322002026 active site 657322002027 putative metal-binding site [ion binding]; other site 657322002028 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 657322002029 DNA gyrase subunit A; Validated; Region: PRK05560 657322002030 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...; Region: TOP4c; cd00187 657322002031 CAP-like domain; other site 657322002032 active site 657322002033 primary dimer interface [polypeptide binding]; other site 657322002034 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657322002035 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657322002036 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657322002037 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657322002038 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657322002039 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657322002040 Domain of unknown function DUF; Region: DUF204; pfam02659 657322002041 Transcriptional regulators [Transcription]; Region: FadR; COG2186 657322002042 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657322002043 DNA-binding site [nucleotide binding]; DNA binding site 657322002044 FCD domain; Region: FCD; pfam07729 657322002045 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 657322002046 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 657322002047 dimer interface [polypeptide binding]; other site 657322002048 ADP-ribose binding site [chemical binding]; other site 657322002049 active site 657322002050 nudix motif; other site 657322002051 metal binding site [ion binding]; metal-binding site 657322002052 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 657322002053 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 657322002054 dimer interface [polypeptide binding]; other site 657322002055 PYR/PP interface [polypeptide binding]; other site 657322002056 TPP binding site [chemical binding]; other site 657322002057 substrate binding site [chemical binding]; other site 657322002058 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657322002059 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 657322002060 Domain of unknown function; Region: EKR; pfam10371 657322002061 4Fe-4S binding domain; Region: Fer4_6; pfam12837 657322002062 4Fe-4S binding domain; Region: Fer4; pfam00037 657322002063 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 657322002064 TPP-binding site [chemical binding]; other site 657322002065 dimer interface [polypeptide binding]; other site 657322002066 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 657322002067 salt bridge; other site 657322002068 non-specific DNA binding site [nucleotide binding]; other site 657322002069 sequence-specific DNA binding site [nucleotide binding]; other site 657322002070 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 657322002071 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 657322002072 MgtE intracellular N domain; Region: MgtE_N; smart00924 657322002073 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 657322002074 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; cd02205 657322002075 Divalent cation transporter; Region: MgtE; pfam01769 657322002076 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 657322002077 DNA polymerase III subunit delta'; Validated; Region: PRK08485 657322002078 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 657322002079 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 657322002080 trimer interface [polypeptide binding]; other site 657322002081 putative metal binding site [ion binding]; other site 657322002082 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657322002083 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657322002084 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 657322002085 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 657322002086 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 657322002087 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 657322002088 Predicted methyltransferases [General function prediction only]; Region: COG0313 657322002089 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 657322002090 putative SAM binding site [chemical binding]; other site 657322002091 putative homodimer interface [polypeptide binding]; other site 657322002092 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 657322002093 S-adenosylmethionine binding site [chemical binding]; other site 657322002094 4Fe-4S binding domain; Region: Fer4; cl02805 657322002095 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 657322002096 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657322002097 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657322002098 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 657322002099 active site 657322002100 catalytic residues [active] 657322002101 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 657322002102 UDP-glucose 4-epimerase; Region: PLN02240 657322002103 NAD binding site [chemical binding]; other site 657322002104 homodimer interface [polypeptide binding]; other site 657322002105 active site 657322002106 substrate binding site [chemical binding]; other site 657322002107 FeoA domain; Region: FeoA; pfam04023 657322002108 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 657322002109 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 657322002110 G1 box; other site 657322002111 GTP/Mg2+ binding site [chemical binding]; other site 657322002112 Switch I region; other site 657322002113 G2 box; other site 657322002114 G3 box; other site 657322002115 Switch II region; other site 657322002116 G4 box; other site 657322002117 G5 box; other site 657322002118 Nucleoside recognition; Region: Gate; pfam07670 657322002119 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 657322002120 Nucleoside recognition; Region: Gate; pfam07670 657322002121 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657322002122 MarR family; Region: MarR_2; pfam12802 657322002123 Predicted permeases [General function prediction only]; Region: COG0730 657322002124 trigger factor; Provisional; Region: tig; PRK01490 657322002125 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657322002126 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 657322002127 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 657322002128 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 657322002129 ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-like; cd04879 657322002130 L-serine binding site [chemical binding]; other site 657322002131 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 657322002132 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 657322002133 active site 657322002134 DNA binding site [nucleotide binding] 657322002135 Int/Topo IB signature motif; other site 657322002136 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322002137 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 657322002138 D5 N terminal like; Region: D5_N; cl07360 657322002139 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 657322002140 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322002141 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 657322002142 non-specific DNA binding site [nucleotide binding]; other site 657322002143 salt bridge; other site 657322002144 sequence-specific DNA binding site [nucleotide binding]; other site 657322002145 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 657322002146 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 657322002147 cofactor binding site; other site 657322002148 DNA binding site [nucleotide binding] 657322002149 substrate interaction site [chemical binding]; other site 657322002150 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 657322002151 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 657322002152 putative active site [active] 657322002153 putative active site [active] 657322002154 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 657322002155 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 657322002156 additional DNA contacts [nucleotide binding]; other site 657322002157 mismatch recognition site; other site 657322002158 active site 657322002159 zinc binding site [ion binding]; other site 657322002160 DNA intercalation site [nucleotide binding]; other site 657322002161 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 657322002162 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 657322002163 active site 657322002164 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 657322002165 dimerization domain swap beta strand [polypeptide binding]; other site 657322002166 regulatory protein interface [polypeptide binding]; other site 657322002167 active site 657322002168 regulatory phosphorylation site [posttranslational modification]; other site 657322002169 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 657322002170 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 657322002171 active site 657322002172 P-loop; other site 657322002173 phosphorylation site [posttranslational modification] 657322002174 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 657322002175 active site 657322002176 phosphorylation site [posttranslational modification] 657322002177 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 657322002178 HTH domain; Region: HTH_11; pfam08279 657322002179 PRD domain; Region: PRD; pfam00874 657322002180 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 657322002181 active site 657322002182 P-loop; other site 657322002183 phosphorylation site [posttranslational modification] 657322002184 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 657322002185 putative NAD(P) binding site [chemical binding]; other site 657322002186 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 657322002187 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657322002188 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 657322002189 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657322002190 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 657322002191 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 657322002192 active site 657322002193 trimer interface [polypeptide binding]; other site 657322002194 allosteric site; other site 657322002195 active site lid [active] 657322002196 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657322002197 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657322002198 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657322002199 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657322002200 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 657322002201 active site 657322002202 phosphorylation site [posttranslational modification] 657322002203 intermolecular recognition site; other site 657322002204 dimerization interface [polypeptide binding]; other site 657322002205 LytTr DNA-binding domain; Region: LytTR; pfam04397 657322002206 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 657322002207 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657322002208 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657322002209 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 657322002210 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657322002211 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657322002212 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 657322002213 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657322002214 phosphodiesterase; Provisional; Region: PRK12704 657322002215 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 657322002216 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657322002217 Zn2+ binding site [ion binding]; other site 657322002218 Mg2+ binding site [ion binding]; other site 657322002219 serine/threonine transporter SstT; Provisional; Region: PRK13628 657322002220 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 657322002221 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 657322002222 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 657322002223 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 657322002224 active site 657322002225 dimer interface [polypeptide binding]; other site 657322002226 motif 1; other site 657322002227 motif 2; other site 657322002228 motif 3; other site 657322002229 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 657322002230 anticodon binding site; other site 657322002231 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 657322002232 hypothetical protein; Provisional; Region: PRK09273 657322002233 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 657322002234 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 657322002235 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 657322002236 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 657322002237 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 657322002238 NADP binding site [chemical binding]; other site 657322002239 homodimer interface [polypeptide binding]; other site 657322002240 active site 657322002241 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 657322002242 classical (c) SDRs; Region: SDR_c; cd05233 657322002243 NAD(P) binding site [chemical binding]; other site 657322002244 active site 657322002245 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 657322002246 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 657322002247 active site 657322002248 HIGH motif; other site 657322002249 dimer interface [polypeptide binding]; other site 657322002250 KMSKS motif; other site 657322002251 PBP superfamily domain; Region: PBP_like_2; cl17296 657322002252 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 657322002253 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 657322002254 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 657322002255 dimer interface [polypeptide binding]; other site 657322002256 conserved gate region; other site 657322002257 putative PBP binding loops; other site 657322002258 ABC-ATPase subunit interface; other site 657322002259 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 657322002260 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 657322002261 dimer interface [polypeptide binding]; other site 657322002262 conserved gate region; other site 657322002263 putative PBP binding loops; other site 657322002264 ABC-ATPase subunit interface; other site 657322002265 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 657322002266 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 657322002267 Walker A/P-loop; other site 657322002268 ATP binding site [chemical binding]; other site 657322002269 Q-loop/lid; other site 657322002270 ABC transporter signature motif; other site 657322002271 Walker B; other site 657322002272 D-loop; other site 657322002273 H-loop/switch region; other site 657322002274 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 657322002275 PhoU domain; Region: PhoU; pfam01895 657322002276 PhoU domain; Region: PhoU; pfam01895 657322002277 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657322002278 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322002279 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657322002280 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 657322002281 active site 657322002282 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657322002283 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322002284 metal binding site [ion binding]; metal-binding site 657322002285 active site 657322002286 I-site; other site 657322002287 4-alpha-glucanotransferase; Provisional; Region: PRK14508 657322002288 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 657322002289 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 657322002290 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 657322002291 S-adenosylmethionine binding site [chemical binding]; other site 657322002292 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 657322002293 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322002294 metal binding site [ion binding]; metal-binding site 657322002295 active site 657322002296 I-site; other site 657322002297 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 657322002298 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657322002299 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322002300 metal binding site [ion binding]; metal-binding site 657322002301 active site 657322002302 I-site; other site 657322002303 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 657322002304 active site 657322002305 homodimer interface [polypeptide binding]; other site 657322002306 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 657322002307 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657322002308 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 657322002309 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 657322002310 active site 657322002311 catalytic tetrad [active] 657322002312 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 657322002313 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 657322002314 G1 box; other site 657322002315 putative GEF interaction site [polypeptide binding]; other site 657322002316 GTP/Mg2+ binding site [chemical binding]; other site 657322002317 Switch I region; other site 657322002318 G2 box; other site 657322002319 G3 box; other site 657322002320 Switch II region; other site 657322002321 G4 box; other site 657322002322 G5 box; other site 657322002323 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 657322002324 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 657322002325 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657322002326 Coenzyme A binding pocket [chemical binding]; other site 657322002327 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 657322002328 S-adenosylmethionine binding site [chemical binding]; other site 657322002329 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 657322002330 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657322002331 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 657322002332 protein binding site [polypeptide binding]; other site 657322002333 pullulanase, type I; Region: pulA_typeI; TIGR02104 657322002334 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 657322002335 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 657322002336 Ca binding site [ion binding]; other site 657322002337 active site 657322002338 catalytic site [active] 657322002339 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657322002340 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657322002341 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; cd05466 657322002342 dimerization interface [polypeptide binding]; other site 657322002343 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 657322002344 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 657322002345 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 657322002346 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657322002347 transketolase; Reviewed; Region: PRK05899 657322002348 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 657322002349 TPP-binding site [chemical binding]; other site 657322002350 dimer interface [polypeptide binding]; other site 657322002351 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 657322002352 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 657322002353 PYR/PP interface [polypeptide binding]; other site 657322002354 dimer interface [polypeptide binding]; other site 657322002355 TPP binding site [chemical binding]; other site 657322002356 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657322002357 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 657322002358 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 657322002359 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 657322002360 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 657322002361 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657322002362 Walker A/P-loop; other site 657322002363 ATP binding site [chemical binding]; other site 657322002364 Q-loop/lid; other site 657322002365 ABC transporter signature motif; other site 657322002366 Walker B; other site 657322002367 D-loop; other site 657322002368 H-loop/switch region; other site 657322002369 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 657322002370 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 657322002371 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657322002372 Walker A/P-loop; other site 657322002373 ATP binding site [chemical binding]; other site 657322002374 Q-loop/lid; other site 657322002375 ABC transporter signature motif; other site 657322002376 Walker B; other site 657322002377 D-loop; other site 657322002378 H-loop/switch region; other site 657322002379 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 657322002380 Predicted ATPases [General function prediction only]; Region: COG1106 657322002381 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322002382 Walker A/P-loop; other site 657322002383 ATP binding site [chemical binding]; other site 657322002384 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322002385 ABC transporter signature motif; other site 657322002386 Walker B; other site 657322002387 D-loop; other site 657322002388 H-loop/switch region; other site 657322002389 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cd00719 657322002390 GIY-YIG motif/motif A; other site 657322002391 active site 657322002392 catalytic site [active] 657322002393 metal binding site [ion binding]; metal-binding site 657322002394 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 657322002395 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 657322002396 B12 binding domain; Region: B12-binding_2; cl03653 657322002397 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 657322002398 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657322002399 CHC2 zinc finger; Region: zf-CHC2; cl17510 657322002400 D5 N terminal like; Region: D5_N; cl07360 657322002401 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 657322002402 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322002403 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 657322002404 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 657322002405 active site 657322002406 DNA binding site [nucleotide binding] 657322002407 Int/Topo IB signature motif; other site 657322002408 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 657322002409 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 657322002410 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 657322002411 active site 657322002412 substrate-binding site [chemical binding]; other site 657322002413 metal-binding site [ion binding] 657322002414 ATP binding site [chemical binding]; other site 657322002415 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 657322002416 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657322002417 catalytic residues [active] 657322002418 GntP family permease; Region: GntP_permease; pfam02447 657322002419 fructuronate transporter; Provisional; Region: PRK10034; cl15264 657322002420 Dehydratase family; Region: ILVD_EDD; pfam00920 657322002421 Transcriptional regulators [Transcription]; Region: FadR; COG2186 657322002422 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657322002423 DNA-binding site [nucleotide binding]; DNA binding site 657322002424 FCD domain; Region: FCD; pfam07729 657322002425 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657322002426 Coenzyme A binding pocket [chemical binding]; other site 657322002427 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 657322002428 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 657322002429 S-adenosylmethionine binding site [chemical binding]; other site 657322002430 RNA methyltransferase, RsmE family; Region: TIGR00046 657322002431 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 657322002432 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 657322002433 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 657322002434 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 657322002435 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 657322002436 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 657322002437 active site 657322002438 nucleophile elbow; other site 657322002439 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 657322002440 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657322002441 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 657322002442 motif II; other site 657322002443 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657322002444 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 657322002445 active site 657322002446 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 657322002447 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 657322002448 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 657322002449 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 657322002450 active site 657322002451 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 657322002452 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 657322002453 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 657322002454 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 657322002455 stage V sporulation protein K; Region: spore_V_K; TIGR02881 657322002456 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 657322002457 Walker A motif; other site 657322002458 ATP binding site [chemical binding]; other site 657322002459 Walker B motif; other site 657322002460 arginine finger; other site 657322002461 Predicted transcriptional regulator [Transcription]; Region: COG2378 657322002462 HTH domain; Region: HTH_11; cl17392 657322002463 WYL domain; Region: WYL; pfam13280 657322002464 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 657322002465 prephenate dehydrogenase; Validated; Region: PRK08507 657322002466 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 657322002467 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 657322002468 active site 657322002469 hinge; other site 657322002470 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 657322002471 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 657322002472 Dehydroquinase class II; Region: DHquinase_II; pfam01220 657322002473 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 657322002474 trimer interface [polypeptide binding]; other site 657322002475 active site 657322002476 dimer interface [polypeptide binding]; other site 657322002477 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 657322002478 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 657322002479 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 657322002480 shikimate binding site; other site 657322002481 NAD(P) binding site [chemical binding]; other site 657322002482 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 657322002483 Shikimate kinase; Region: SKI; pfam01202 657322002484 ADP binding site [chemical binding]; other site 657322002485 magnesium binding site [ion binding]; other site 657322002486 putative shikimate binding site; other site 657322002487 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 657322002488 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 657322002489 Tetramer interface [polypeptide binding]; other site 657322002490 active site 657322002491 FMN-binding site [chemical binding]; other site 657322002492 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 657322002493 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 657322002494 active site 657322002495 dimer interface [polypeptide binding]; other site 657322002496 metal binding site [ion binding]; metal-binding site 657322002497 Chorismate mutase type II; Region: CM_2; cl00693 657322002498 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 657322002499 Prephenate dehydratase; Region: PDT; pfam00800 657322002500 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 657322002501 putative L-Phe binding site [chemical binding]; other site 657322002502 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657322002503 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 657322002504 putative acyl-acceptor binding pocket; other site 657322002505 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657322002506 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 657322002507 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 657322002508 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 657322002509 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 657322002510 active site 657322002511 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322002512 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 657322002513 non-specific DNA binding site [nucleotide binding]; other site 657322002514 salt bridge; other site 657322002515 sequence-specific DNA binding site [nucleotide binding]; other site 657322002516 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322002517 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 657322002518 active site 657322002519 phosphorylation site [posttranslational modification] 657322002520 intermolecular recognition site; other site 657322002521 dimerization interface [polypeptide binding]; other site 657322002522 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 657322002523 DNA binding site [nucleotide binding] 657322002524 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322002525 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 657322002526 dimer interface [polypeptide binding]; other site 657322002527 phosphorylation site [posttranslational modification] 657322002528 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 657322002529 ATP binding site [chemical binding]; other site 657322002530 Mg2+ binding site [ion binding]; other site 657322002531 G-X-G motif; other site 657322002532 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657322002533 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657322002534 Walker A/P-loop; other site 657322002535 ATP binding site [chemical binding]; other site 657322002536 Q-loop/lid; other site 657322002537 ABC transporter signature motif; other site 657322002538 Walker B; other site 657322002539 D-loop; other site 657322002540 H-loop/switch region; other site 657322002541 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657322002542 FtsX-like permease family; Region: FtsX; pfam02687 657322002543 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657322002544 FtsX-like permease family; Region: FtsX; pfam02687 657322002545 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322002546 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 657322002547 MobA/MobL family; Region: MobA_MobL; pfam03389 657322002548 CHC2 zinc finger; Region: zf-CHC2; cl17510 657322002549 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322002550 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; cl02788 657322002551 catalytic residues [active] 657322002552 Recombinase; Region: Recombinase; pfam07508 657322002553 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322002554 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657322002555 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 657322002556 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 657322002557 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 657322002558 FeS/SAM binding site; other site 657322002559 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 657322002560 non-specific DNA binding site [nucleotide binding]; other site 657322002561 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 657322002562 salt bridge; other site 657322002563 sequence-specific DNA binding site [nucleotide binding]; other site 657322002564 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 657322002565 Catalytic site [active] 657322002566 TraX protein; Region: TraX; pfam05857 657322002567 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657322002568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657322002569 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; cd05466 657322002570 dimerization interface [polypeptide binding]; other site 657322002571 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 657322002572 nucleophilic elbow; other site 657322002573 catalytic triad; other site 657322002574 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 657322002575 trimer interface [polypeptide binding]; other site 657322002576 putative Zn binding site [ion binding]; other site 657322002577 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322002578 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 657322002579 catalytic residues [active] 657322002580 catalytic nucleophile [active] 657322002581 Recombinase; Region: Recombinase; pfam07508 657322002582 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322002583 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 657322002584 RuvA N terminal domain; Region: RuvA_N; pfam01330 657322002585 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 657322002586 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 657322002587 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 657322002588 Walker A motif; other site 657322002589 ATP binding site [chemical binding]; other site 657322002590 Walker B motif; other site 657322002591 arginine finger; other site 657322002592 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 657322002593 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 657322002594 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 657322002595 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657322002596 Walker A/P-loop; other site 657322002597 ATP binding site [chemical binding]; other site 657322002598 Q-loop/lid; other site 657322002599 ABC transporter signature motif; other site 657322002600 Walker B; other site 657322002601 D-loop; other site 657322002602 H-loop/switch region; other site 657322002603 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 657322002604 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657322002605 Walker A/P-loop; other site 657322002606 ATP binding site [chemical binding]; other site 657322002607 Q-loop/lid; other site 657322002608 ABC transporter signature motif; other site 657322002609 Walker B; other site 657322002610 D-loop; other site 657322002611 H-loop/switch region; other site 657322002612 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 657322002613 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 657322002614 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 657322002615 dimerization interface 3.5A [polypeptide binding]; other site 657322002616 active site 657322002617 MoxR-like ATPases [General function prediction only]; Region: COG0714 657322002618 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 657322002619 Walker A motif; other site 657322002620 ATP binding site [chemical binding]; other site 657322002621 Walker B motif; other site 657322002622 arginine finger; other site 657322002623 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 657322002624 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657322002625 Walker A motif; other site 657322002626 ATP binding site [chemical binding]; other site 657322002627 Walker B motif; other site 657322002628 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657322002629 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322002630 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 657322002631 non-specific DNA binding site [nucleotide binding]; other site 657322002632 salt bridge; other site 657322002633 sequence-specific DNA binding site [nucleotide binding]; other site 657322002634 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 657322002635 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 657322002636 active site 657322002637 HIGH motif; other site 657322002638 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 657322002639 active site 657322002640 KMSKS motif; other site 657322002641 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 657322002642 putative pectinesterase; Region: PLN02432; cl01911 657322002643 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322002644 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 657322002645 dimerization interface [polypeptide binding]; other site 657322002646 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 657322002647 dimer interface [polypeptide binding]; other site 657322002648 phosphorylation site [posttranslational modification] 657322002649 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 657322002650 ATP binding site [chemical binding]; other site 657322002651 Mg2+ binding site [ion binding]; other site 657322002652 G-X-G motif; other site 657322002653 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322002654 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 657322002655 active site 657322002656 phosphorylation site [posttranslational modification] 657322002657 intermolecular recognition site; other site 657322002658 dimerization interface [polypeptide binding]; other site 657322002659 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 657322002660 DNA binding site [nucleotide binding] 657322002661 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 657322002662 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 657322002663 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 657322002664 trimer interface [polypeptide binding]; other site 657322002665 active site 657322002666 substrate binding site [chemical binding]; other site 657322002667 CoA binding site [chemical binding]; other site 657322002668 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 657322002669 hypothetical protein; Provisional; Region: PRK13690 657322002670 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 657322002671 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657322002672 catalytic residue [active] 657322002673 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657322002674 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657322002675 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 657322002676 Walker A/P-loop; other site 657322002677 ATP binding site [chemical binding]; other site 657322002678 Q-loop/lid; other site 657322002679 ABC transporter signature motif; other site 657322002680 Walker B; other site 657322002681 D-loop; other site 657322002682 H-loop/switch region; other site 657322002683 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 657322002684 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 657322002685 active site 657322002686 nucleophile elbow; other site 657322002687 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657322002688 EamA-like transporter family; Region: EamA; pfam00892 657322002689 Protein of unknown function DUF45; Region: DUF45; pfam01863 657322002690 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657322002691 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657322002692 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657322002693 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657322002694 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 657322002695 Uncharacterized conserved protein [Function unknown]; Region: COG0327 657322002696 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 657322002697 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 657322002698 Domain of unknown function (DUF814); Region: DUF814; pfam05670 657322002699 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 657322002700 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 657322002701 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 657322002702 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 657322002703 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 657322002704 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 657322002705 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 657322002706 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 657322002707 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 657322002708 protein-rRNA interface [nucleotide binding]; other site 657322002709 putative translocon binding site; other site 657322002710 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 657322002711 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 657322002712 G-X-X-G motif; other site 657322002713 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 657322002714 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 657322002715 23S rRNA interface [nucleotide binding]; other site 657322002716 5S rRNA interface [nucleotide binding]; other site 657322002717 putative antibiotic binding site [chemical binding]; other site 657322002718 L25 interface [polypeptide binding]; other site 657322002719 L27 interface [polypeptide binding]; other site 657322002720 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 657322002721 23S rRNA interface [nucleotide binding]; other site 657322002722 putative translocon interaction site; other site 657322002723 signal recognition particle (SRP54) interaction site; other site 657322002724 L23 interface [polypeptide binding]; other site 657322002725 trigger factor interaction site; other site 657322002726 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 657322002727 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 657322002728 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 657322002729 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 657322002730 RNA binding site [nucleotide binding]; other site 657322002731 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 657322002732 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 657322002733 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 657322002734 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 657322002735 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 657322002736 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 657322002737 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657322002738 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657322002739 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 657322002740 5S rRNA interface [nucleotide binding]; other site 657322002741 L27 interface [polypeptide binding]; other site 657322002742 23S rRNA interface [nucleotide binding]; other site 657322002743 L5 interface [polypeptide binding]; other site 657322002744 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 657322002745 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 657322002746 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 657322002747 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 657322002748 23S rRNA binding site [nucleotide binding]; other site 657322002749 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 657322002750 adenylate kinase; Reviewed; Region: adk; PRK00279 657322002751 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 657322002752 AMP-binding site [chemical binding]; other site 657322002753 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 657322002754 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 657322002755 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 657322002756 30S ribosomal protein S13; Region: bact_S13; TIGR03631 657322002757 30S ribosomal protein S11; Validated; Region: PRK05309 657322002758 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 657322002759 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 657322002760 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 657322002761 RNA binding surface [nucleotide binding]; other site 657322002762 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 657322002763 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 657322002764 alphaNTD - beta interaction site [polypeptide binding]; other site 657322002765 alphaNTD homodimer interface [polypeptide binding]; other site 657322002766 alphaNTD - beta' interaction site [polypeptide binding]; other site 657322002767 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 657322002768 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 657322002769 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322002770 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 657322002771 active site 657322002772 phosphorylation site [posttranslational modification] 657322002773 intermolecular recognition site; other site 657322002774 dimerization interface [polypeptide binding]; other site 657322002775 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 657322002776 DNA binding site [nucleotide binding] 657322002777 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322002778 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 657322002779 dimerization interface [polypeptide binding]; other site 657322002780 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 657322002781 dimer interface [polypeptide binding]; other site 657322002782 phosphorylation site [posttranslational modification] 657322002783 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 657322002784 ATP binding site [chemical binding]; other site 657322002785 Mg2+ binding site [ion binding]; other site 657322002786 G-X-G motif; other site 657322002787 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 657322002788 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 657322002789 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 657322002790 S-adenosylmethionine binding site [chemical binding]; other site 657322002791 recombinase A; Provisional; Region: recA; PRK09354 657322002792 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 657322002793 hexamer interface [polypeptide binding]; other site 657322002794 Walker A motif; other site 657322002795 ATP binding site [chemical binding]; other site 657322002796 Walker B motif; other site 657322002797 RecX family; Region: RecX; cl00936 657322002798 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 657322002799 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657322002800 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 657322002801 FeS/SAM binding site; other site 657322002802 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 657322002803 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 657322002804 Malic enzyme, N-terminal domain; Region: malic; pfam00390 657322002805 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 657322002806 putative NAD(P) binding site [chemical binding]; other site 657322002807 fumarate hydratase; Provisional; Region: PRK06246 657322002808 Fumarase C-terminus; Region: Fumerase_C; cl00795 657322002809 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 657322002810 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 657322002811 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 657322002812 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657322002813 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322002814 metal binding site [ion binding]; metal-binding site 657322002815 active site 657322002816 I-site; other site 657322002817 SWIM zinc finger; Region: SWIM; pfam04434 657322002818 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 657322002819 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 657322002820 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 657322002821 ATP binding site [chemical binding]; other site 657322002822 putative Mg++ binding site [ion binding]; other site 657322002823 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 657322002824 nucleotide binding region [chemical binding]; other site 657322002825 ATP-binding site [chemical binding]; other site 657322002826 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 657322002827 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 657322002828 active site 657322002829 dimer interface [polypeptide binding]; other site 657322002830 hypothetical protein; Provisional; Region: PRK10621 657322002831 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 657322002832 EDD domain protein, DegV family; Region: DegV; TIGR00762 657322002833 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 657322002834 CAAX protease self-immunity; Region: Abi; pfam02517 657322002835 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 657322002836 nucleoside/Zn binding site; other site 657322002837 dimer interface [polypeptide binding]; other site 657322002838 catalytic motif [active] 657322002839 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 657322002840 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 657322002841 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322002842 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657322002843 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 657322002844 DNA binding residues [nucleotide binding] 657322002845 PemK-like protein; Region: PemK; pfam02452 657322002846 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 657322002847 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 657322002848 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 657322002849 FMN binding site [chemical binding]; other site 657322002850 active site 657322002851 catalytic residues [active] 657322002852 substrate binding site [chemical binding]; other site 657322002853 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 657322002854 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 657322002855 dimer interface [polypeptide binding]; other site 657322002856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322002857 catalytic residue [active] 657322002858 Rrf2 family protein; Region: rrf2_super; TIGR00738 657322002859 Transcriptional regulator; Region: Rrf2; cl17282 657322002860 Nuclease-related domain; Region: NERD; pfam08378 657322002861 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 657322002862 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 657322002863 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 657322002864 metal-binding site [ion binding] 657322002865 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657322002866 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657322002867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322002868 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322002869 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 657322002870 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 657322002871 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 657322002872 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 657322002873 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 657322002874 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657322002875 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657322002876 Walker A/P-loop; other site 657322002877 ATP binding site [chemical binding]; other site 657322002878 Q-loop/lid; other site 657322002879 ABC transporter signature motif; other site 657322002880 Walker B; other site 657322002881 D-loop; other site 657322002882 H-loop/switch region; other site 657322002883 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 657322002884 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 657322002885 nucleotide binding site [chemical binding]; other site 657322002886 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 657322002887 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 657322002888 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 657322002889 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 657322002890 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 657322002891 Alkaline phosphatase homologues; Region: alkPPc; smart00098 657322002892 active site 657322002893 dimer interface [polypeptide binding]; other site 657322002894 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 657322002895 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 657322002896 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657322002897 active site 657322002898 motif I; other site 657322002899 motif II; other site 657322002900 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657322002901 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 657322002902 active site 657322002903 catalytic site [active] 657322002904 substrate binding site [chemical binding]; other site 657322002905 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 657322002906 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 657322002907 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 657322002908 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 657322002909 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322002910 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657322002911 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 657322002912 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 657322002913 ABC-ATPase subunit interface; other site 657322002914 dimer interface [polypeptide binding]; other site 657322002915 putative PBP binding regions; other site 657322002916 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 657322002917 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 657322002918 Walker A/P-loop; other site 657322002919 ATP binding site [chemical binding]; other site 657322002920 Q-loop/lid; other site 657322002921 ABC transporter signature motif; other site 657322002922 Walker B; other site 657322002923 D-loop; other site 657322002924 H-loop/switch region; other site 657322002925 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 657322002926 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 657322002927 putative ligand binding residues [chemical binding]; other site 657322002928 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657322002929 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 657322002930 AAA domain; Region: AAA_22; pfam13401 657322002931 Walker A motif; other site 657322002932 ATP binding site [chemical binding]; other site 657322002933 Walker B motif; other site 657322002934 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 657322002935 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 657322002936 trimerization site [polypeptide binding]; other site 657322002937 active site 657322002938 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 657322002939 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 657322002940 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657322002941 catalytic residue [active] 657322002942 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; cd00158 657322002943 active site residue [active] 657322002944 Predicted transcriptional regulator [Transcription]; Region: COG1959 657322002945 Transcriptional regulator; Region: Rrf2; cl17282 657322002946 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 657322002947 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 657322002948 putative active site [active] 657322002949 metal binding site [ion binding]; metal-binding site 657322002950 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 657322002951 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 657322002952 active site 657322002953 HIGH motif; other site 657322002954 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 657322002955 KMSKS motif; other site 657322002956 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 657322002957 tRNA binding surface [nucleotide binding]; other site 657322002958 anticodon binding site; other site 657322002959 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 657322002960 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 657322002961 FeS/SAM binding site; other site 657322002962 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 657322002963 Pyruvate formate lyase 1; Region: PFL1; cd01678 657322002964 coenzyme A binding site [chemical binding]; other site 657322002965 active site 657322002966 catalytic residues [active] 657322002967 glycine loop; other site 657322002968 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 657322002969 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657322002970 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 657322002971 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657322002972 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 657322002973 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 657322002974 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657322002975 acyl-activating enzyme (AAE) consensus motif; other site 657322002976 AMP binding site [chemical binding]; other site 657322002977 active site 657322002978 CoA binding site [chemical binding]; other site 657322002979 Phosphopantetheine attachment site; Region: PP-binding; cl09936 657322002980 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 657322002981 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 657322002982 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 657322002983 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 657322002984 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 657322002985 GDP-binding site [chemical binding]; other site 657322002986 ACT binding site; other site 657322002987 IMP binding site; other site 657322002988 EDD domain protein, DegV family; Region: DegV; TIGR00762 657322002989 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 657322002990 asparagine synthetase AsnA; Provisional; Region: PRK05425 657322002991 motif 1; other site 657322002992 dimer interface [polypeptide binding]; other site 657322002993 active site 657322002994 motif 2; other site 657322002995 motif 3; other site 657322002996 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 657322002997 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 657322002998 Walker A/P-loop; other site 657322002999 ATP binding site [chemical binding]; other site 657322003000 Q-loop/lid; other site 657322003001 ABC transporter signature motif; other site 657322003002 Walker B; other site 657322003003 D-loop; other site 657322003004 H-loop/switch region; other site 657322003005 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 657322003006 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 657322003007 Walker A/P-loop; other site 657322003008 ATP binding site [chemical binding]; other site 657322003009 Q-loop/lid; other site 657322003010 ABC transporter signature motif; other site 657322003011 Walker B; other site 657322003012 D-loop; other site 657322003013 H-loop/switch region; other site 657322003014 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 657322003015 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 657322003016 TM-ABC transporter signature motif; other site 657322003017 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657322003018 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 657322003019 TM-ABC transporter signature motif; other site 657322003020 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 657322003021 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 657322003022 putative ligand binding site [chemical binding]; other site 657322003023 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322003024 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657322003025 enolase; Provisional; Region: eno; PRK00077 657322003026 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 657322003027 dimer interface [polypeptide binding]; other site 657322003028 metal binding site [ion binding]; metal-binding site 657322003029 substrate binding pocket [chemical binding]; other site 657322003030 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 657322003031 PAS fold; Region: PAS_3; pfam08447 657322003032 putative active site [active] 657322003033 heme pocket [chemical binding]; other site 657322003034 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657322003035 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322003036 metal binding site [ion binding]; metal-binding site 657322003037 active site 657322003038 I-site; other site 657322003039 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 657322003040 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 657322003041 active site 657322003042 phosphorylation site [posttranslational modification] 657322003043 intermolecular recognition site; other site 657322003044 dimerization interface [polypeptide binding]; other site 657322003045 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657322003046 Zn2+ binding site [ion binding]; other site 657322003047 Mg2+ binding site [ion binding]; other site 657322003048 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 657322003049 Flavoprotein; Region: Flavoprotein; cl08021 657322003050 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657322003051 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657322003052 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 657322003053 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 657322003054 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 657322003055 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 657322003056 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 657322003057 Walker A/P-loop; other site 657322003058 ATP binding site [chemical binding]; other site 657322003059 Q-loop/lid; other site 657322003060 ABC transporter signature motif; other site 657322003061 Walker B; other site 657322003062 D-loop; other site 657322003063 H-loop/switch region; other site 657322003064 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 657322003065 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 657322003066 Probable Catalytic site; other site 657322003067 metal-binding site 657322003068 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657322003069 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 657322003070 Probable Catalytic site; other site 657322003071 metal-binding site 657322003072 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 657322003073 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 657322003074 FMN-binding domain; Region: FMN_bind; cl01081 657322003075 electron transport complex RsxE subunit; Provisional; Region: PRK12405 657322003076 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 657322003077 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657322003078 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657322003079 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 657322003080 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657322003081 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657322003082 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657322003083 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322003084 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 657322003085 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 657322003086 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 657322003087 active site 657322003088 Zn binding site [ion binding]; other site 657322003089 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 657322003090 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657322003091 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657322003092 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 657322003093 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657322003094 nucleotide binding site [chemical binding]; other site 657322003095 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 657322003096 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 657322003097 S-adenosylmethionine binding site [chemical binding]; other site 657322003098 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 657322003099 Predicted transcriptional regulators [Transcription]; Region: COG1695 657322003100 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 657322003101 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657322003102 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322003103 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322003104 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 657322003105 non-specific DNA binding site [nucleotide binding]; other site 657322003106 salt bridge; other site 657322003107 sequence-specific DNA binding site [nucleotide binding]; other site 657322003108 CHC2 zinc finger; Region: zf-CHC2; cl17510 657322003109 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 657322003110 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322003111 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 657322003112 catalytic residues [active] 657322003113 catalytic nucleophile [active] 657322003114 Recombinase; Region: Recombinase; pfam07508 657322003115 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322003116 Helix-turn-helix domain; Region: HTH_36; pfam13730 657322003117 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 657322003118 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 657322003119 Walker A motif; other site 657322003120 ATP binding site [chemical binding]; other site 657322003121 Walker B motif; other site 657322003122 Maff2 family; Region: Maff2; pfam12750 657322003123 PrgI family protein; Region: PrgI; pfam12666 657322003124 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 657322003125 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 657322003126 cofactor binding site; other site 657322003127 DNA binding site [nucleotide binding] 657322003128 substrate interaction site [chemical binding]; other site 657322003129 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 657322003130 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 657322003131 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 657322003132 active site 657322003133 putative metal-binding site [ion binding]; other site 657322003134 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657322003135 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 657322003136 active site 657322003137 phosphorylation site [posttranslational modification] 657322003138 intermolecular recognition site; other site 657322003139 LytTr DNA-binding domain; Region: LytTR; smart00850 657322003140 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 657322003141 ATP binding site [chemical binding]; other site 657322003142 Mg2+ binding site [ion binding]; other site 657322003143 G-X-G motif; other site 657322003144 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 657322003145 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 657322003146 putative active site [active] 657322003147 catalytic site [active] 657322003148 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 657322003149 putative active site [active] 657322003150 catalytic site [active] 657322003151 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 657322003152 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 657322003153 ATP-binding site [chemical binding]; other site 657322003154 Sugar specificity; other site 657322003155 Pyrimidine base specificity; other site 657322003156 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 657322003157 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 657322003158 gamma subunit interface [polypeptide binding]; other site 657322003159 epsilon subunit interface [polypeptide binding]; other site 657322003160 LBP interface [polypeptide binding]; other site 657322003161 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 657322003162 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657322003163 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 657322003164 alpha subunit interaction interface [polypeptide binding]; other site 657322003165 Walker A motif; other site 657322003166 ATP binding site [chemical binding]; other site 657322003167 Walker B motif; other site 657322003168 inhibitor binding site; inhibition site 657322003169 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657322003170 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 657322003171 core domain interface [polypeptide binding]; other site 657322003172 delta subunit interface [polypeptide binding]; other site 657322003173 epsilon subunit interface [polypeptide binding]; other site 657322003174 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 657322003175 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657322003176 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 657322003177 beta subunit interaction interface [polypeptide binding]; other site 657322003178 Walker A motif; other site 657322003179 ATP binding site [chemical binding]; other site 657322003180 Walker B motif; other site 657322003181 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657322003182 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 657322003183 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 657322003184 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 657322003185 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 657322003186 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 657322003187 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 657322003188 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 657322003189 glycogen synthase; Provisional; Region: glgA; PRK00654 657322003190 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 657322003191 ADP-binding pocket [chemical binding]; other site 657322003192 homodimer interface [polypeptide binding]; other site 657322003193 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 657322003194 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 657322003195 ligand binding site; other site 657322003196 oligomer interface; other site 657322003197 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 657322003198 dimer interface [polypeptide binding]; other site 657322003199 N-terminal domain interface [polypeptide binding]; other site 657322003200 sulfate 1 binding site; other site 657322003201 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 657322003202 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 657322003203 ligand binding site; other site 657322003204 oligomer interface; other site 657322003205 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 657322003206 dimer interface [polypeptide binding]; other site 657322003207 N-terminal domain interface [polypeptide binding]; other site 657322003208 sulfate 1 binding site; other site 657322003209 glycogen branching enzyme; Provisional; Region: PRK12313 657322003210 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 657322003211 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 657322003212 active site 657322003213 catalytic site [active] 657322003214 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 657322003215 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 657322003216 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 657322003217 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 657322003218 active site 657322003219 catalytic triad [active] 657322003220 oxyanion hole [active] 657322003221 Peptidase M15; Region: Peptidase_M15_3; cl01194 657322003222 Phage lysis protein, holin; Region: Phage_holin; cl04675 657322003223 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657322003224 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657322003225 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657322003226 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 657322003227 Type III pantothenate kinase; Region: Pan_kinase; cl17198 657322003228 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 657322003229 Flavoprotein; Region: Flavoprotein; pfam02441 657322003230 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 657322003231 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 657322003232 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657322003233 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657322003234 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657322003235 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 657322003236 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 657322003237 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657322003238 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657322003239 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 657322003240 glycerol kinase; Provisional; Region: glpK; PRK00047 657322003241 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 657322003242 N- and C-terminal domain interface [polypeptide binding]; other site 657322003243 active site 657322003244 MgATP binding site [chemical binding]; other site 657322003245 catalytic site [active] 657322003246 metal binding site [ion binding]; metal-binding site 657322003247 glycerol binding site [chemical binding]; other site 657322003248 homotetramer interface [polypeptide binding]; other site 657322003249 homodimer interface [polypeptide binding]; other site 657322003250 FBP binding site [chemical binding]; other site 657322003251 protein IIAGlc interface [polypeptide binding]; other site 657322003252 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 657322003253 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657322003254 Predicted nucleotidyltransferase [General function prediction only]; Region: COG1323 657322003255 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 657322003256 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 657322003257 propionate/acetate kinase; Provisional; Region: PRK12379 657322003258 Probable zinc-binding domain; Region: zf-trcl; pfam13451 657322003259 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 657322003260 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 657322003261 active site 657322003262 O-Antigen ligase; Region: Wzy_C; pfam04932 657322003263 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657322003264 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 657322003265 active site 657322003266 Chain length determinant protein; Region: Wzz; cl15801 657322003267 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657322003268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322003269 metal binding site [ion binding]; metal-binding site 657322003270 active site 657322003271 I-site; other site 657322003272 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 657322003273 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657322003274 putative active site [active] 657322003275 putative metal binding site [ion binding]; other site 657322003276 GTP-binding protein LepA; Provisional; Region: PRK05433 657322003277 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 657322003278 G1 box; other site 657322003279 putative GEF interaction site [polypeptide binding]; other site 657322003280 GTP/Mg2+ binding site [chemical binding]; other site 657322003281 Switch I region; other site 657322003282 G2 box; other site 657322003283 G3 box; other site 657322003284 Switch II region; other site 657322003285 G4 box; other site 657322003286 G5 box; other site 657322003287 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 657322003288 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 657322003289 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 657322003290 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 657322003291 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 657322003292 active site 657322003293 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657322003294 dimer interface [polypeptide binding]; other site 657322003295 substrate binding site [chemical binding]; other site 657322003296 catalytic residues [active] 657322003297 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 657322003298 Ligand Binding Site [chemical binding]; other site 657322003299 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 657322003300 23S rRNA interface [nucleotide binding]; other site 657322003301 L3 interface [polypeptide binding]; other site 657322003302 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 657322003303 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657322003304 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 657322003305 P-loop; other site 657322003306 Magnesium ion binding site [ion binding]; other site 657322003307 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 657322003308 Magnesium ion binding site [ion binding]; other site 657322003309 Helix-turn-helix domain; Region: HTH_36; pfam13730 657322003310 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 657322003311 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 657322003312 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 657322003313 Walker A motif; other site 657322003314 ATP binding site [chemical binding]; other site 657322003315 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 657322003316 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 657322003317 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 657322003318 putative active site [active] 657322003319 putative NTP binding site [chemical binding]; other site 657322003320 putative nucleic acid binding site [nucleotide binding]; other site 657322003321 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 657322003322 Maff2 family; Region: Maff2; pfam12750 657322003323 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 657322003324 salt bridge; other site 657322003325 non-specific DNA binding site [nucleotide binding]; other site 657322003326 sequence-specific DNA binding site [nucleotide binding]; other site 657322003327 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322003328 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 657322003329 non-specific DNA binding site [nucleotide binding]; other site 657322003330 salt bridge; other site 657322003331 sequence-specific DNA binding site [nucleotide binding]; other site 657322003332 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 657322003333 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 657322003334 SdpI/YhfL protein family; Region: SdpI; pfam13630 657322003335 MobA/MobL family; Region: MobA_MobL; pfam03389 657322003336 Virulence-associated protein E; Region: VirE; pfam05272 657322003337 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322003338 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657322003339 putative catalytic residues [active] 657322003340 catalytic nucleophile [active] 657322003341 Recombinase; Region: Recombinase; pfam07508 657322003342 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322003343 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657322003344 Protein of unknown function (DUF3851); Region: DUF3851; pfam12962 657322003345 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 657322003346 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 657322003347 DNA topoisomerase III; Provisional; Region: PRK07726 657322003348 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 657322003349 active site 657322003350 putative interdomain interaction site [polypeptide binding]; other site 657322003351 putative metal-binding site [ion binding]; other site 657322003352 putative nucleotide binding site [chemical binding]; other site 657322003353 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 657322003354 domain I; other site 657322003355 DNA binding groove [nucleotide binding] 657322003356 phosphate binding site [ion binding]; other site 657322003357 domain II; other site 657322003358 domain III; other site 657322003359 nucleotide binding site [chemical binding]; other site 657322003360 catalytic site [active] 657322003361 domain IV; other site 657322003362 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657322003363 CHC2 zinc finger; Region: zf-CHC2; cl17510 657322003364 YodL-like; Region: YodL; pfam14191 657322003365 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 657322003366 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 657322003367 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657322003368 Protein of unknown function (DUF3848); Region: DUF3848; pfam12959 657322003369 Protein of unknown function (DUF3849); Region: DUF3849; pfam12960 657322003370 Divergent AAA domain; Region: AAA_4; pfam04326 657322003371 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 657322003372 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657322003373 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 657322003374 non-specific DNA binding site [nucleotide binding]; other site 657322003375 salt bridge; other site 657322003376 sequence-specific DNA binding site [nucleotide binding]; other site 657322003377 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 657322003378 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 657322003379 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657322003380 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657322003381 Walker A/P-loop; other site 657322003382 ATP binding site [chemical binding]; other site 657322003383 Q-loop/lid; other site 657322003384 ABC transporter signature motif; other site 657322003385 Walker B; other site 657322003386 D-loop; other site 657322003387 H-loop/switch region; other site 657322003388 Second domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain2; cd03226 657322003389 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 657322003390 Walker A/P-loop; other site 657322003391 ATP binding site [chemical binding]; other site 657322003392 Q-loop/lid; other site 657322003393 ABC transporter signature motif; other site 657322003394 Walker B; other site 657322003395 D-loop; other site 657322003396 H-loop/switch region; other site 657322003397 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657322003398 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322003399 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657322003400 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657322003401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322003402 Walker A/P-loop; other site 657322003403 ATP binding site [chemical binding]; other site 657322003404 Q-loop/lid; other site 657322003405 ABC transporter signature motif; other site 657322003406 Walker B; other site 657322003407 D-loop; other site 657322003408 H-loop/switch region; other site 657322003409 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657322003410 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657322003411 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322003412 Walker A/P-loop; other site 657322003413 ATP binding site [chemical binding]; other site 657322003414 Q-loop/lid; other site 657322003415 ABC transporter signature motif; other site 657322003416 Walker B; other site 657322003417 D-loop; other site 657322003418 H-loop/switch region; other site 657322003419 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 657322003420 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 657322003421 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 657322003422 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657322003423 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 657322003424 DNA binding residues [nucleotide binding] 657322003425 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322003426 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 657322003427 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 657322003428 active site 657322003429 DNA binding site [nucleotide binding] 657322003430 Int/Topo IB signature motif; other site 657322003431 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 657322003432 Clp amino terminal domain; Region: Clp_N; pfam02861 657322003433 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 657322003434 Walker A motif; other site 657322003435 ATP binding site [chemical binding]; other site 657322003436 Walker B motif; other site 657322003437 arginine finger; other site 657322003438 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 657322003439 Walker A motif; other site 657322003440 ATP binding site [chemical binding]; other site 657322003441 Walker B motif; other site 657322003442 arginine finger; other site 657322003443 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 657322003444 Domain of unknown function DUF21; Region: DUF21; pfam01595 657322003445 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 657322003446 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 657322003447 Transporter associated domain; Region: CorC_HlyC; smart01091 657322003448 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 657322003449 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657322003450 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 657322003451 substrate binding site [chemical binding]; other site 657322003452 ATP binding site [chemical binding]; other site 657322003453 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 657322003454 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 657322003455 active site 657322003456 intersubunit interface [polypeptide binding]; other site 657322003457 catalytic residue [active] 657322003458 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; cl14632 657322003459 active site 657322003460 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 657322003461 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 657322003462 active site 657322003463 motif I; other site 657322003464 motif II; other site 657322003465 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 657322003466 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 657322003467 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 657322003468 active site 657322003469 Transcriptional regulators [Transcription]; Region: GntR; COG1802 657322003470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657322003471 DNA-binding site [nucleotide binding]; DNA binding site 657322003472 FCD domain; Region: FCD; pfam07729 657322003473 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657322003474 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657322003475 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 657322003476 HSP70 interaction site [polypeptide binding]; other site 657322003477 Tetratricopeptide repeat; Region: TPR_16; pfam13432 657322003478 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 657322003479 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657322003480 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657322003481 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657322003482 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657322003483 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657322003484 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 657322003485 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 657322003486 S-adenosylmethionine binding site [chemical binding]; other site 657322003487 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 657322003488 MraW methylase family; Region: Methyltransf_5; pfam01795 657322003489 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 657322003490 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 657322003491 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 657322003492 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657322003493 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 657322003494 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 657322003495 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 657322003496 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657322003497 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657322003498 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657322003499 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 657322003500 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 657322003501 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 657322003502 active site 657322003503 homodimer interface [polypeptide binding]; other site 657322003504 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 657322003505 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 657322003506 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657322003507 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657322003508 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657322003509 acyl carrier protein; Provisional; Region: acpP; PRK00982 657322003510 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 657322003511 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 657322003512 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 657322003513 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 657322003514 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 657322003515 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 657322003516 dimer interface [polypeptide binding]; other site 657322003517 active site 657322003518 CoA binding pocket [chemical binding]; other site 657322003519 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 657322003520 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 657322003521 FMN binding site [chemical binding]; other site 657322003522 substrate binding site [chemical binding]; other site 657322003523 putative catalytic residue [active] 657322003524 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 657322003525 FMN binding site [chemical binding]; other site 657322003526 substrate binding site [chemical binding]; other site 657322003527 putative catalytic residue [active] 657322003528 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 657322003529 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 657322003530 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 657322003531 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 657322003532 NAD(P) binding site [chemical binding]; other site 657322003533 homotetramer interface [polypeptide binding]; other site 657322003534 homodimer interface [polypeptide binding]; other site 657322003535 active site 657322003536 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 657322003537 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 657322003538 dimer interface [polypeptide binding]; other site 657322003539 active site 657322003540 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 657322003541 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657322003542 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 657322003543 active site 657322003544 catalytic site [active] 657322003545 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 657322003546 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 657322003547 beta-galactosidase; Region: BGL; TIGR03356 657322003548 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 657322003549 ATP binding site [chemical binding]; other site 657322003550 active site 657322003551 substrate binding site [chemical binding]; other site 657322003552 MarR family; Region: MarR_2; pfam12802 657322003553 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657322003554 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657322003555 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322003556 Walker A/P-loop; other site 657322003557 ATP binding site [chemical binding]; other site 657322003558 Q-loop/lid; other site 657322003559 ABC transporter signature motif; other site 657322003560 Walker B; other site 657322003561 D-loop; other site 657322003562 H-loop/switch region; other site 657322003563 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657322003564 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657322003565 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657322003566 Walker A/P-loop; other site 657322003567 ATP binding site [chemical binding]; other site 657322003568 Q-loop/lid; other site 657322003569 ABC transporter signature motif; other site 657322003570 Walker B; other site 657322003571 D-loop; other site 657322003572 H-loop/switch region; other site 657322003573 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657322003574 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657322003575 Predicted esterase [General function prediction only]; Region: COG0400 657322003576 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657322003577 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 657322003578 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 657322003579 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 657322003580 ATP binding site [chemical binding]; other site 657322003581 putative Mg++ binding site [ion binding]; other site 657322003582 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 657322003583 nucleotide binding region [chemical binding]; other site 657322003584 ATP-binding site [chemical binding]; other site 657322003585 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 657322003586 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 657322003587 putative active site [active] 657322003588 catalytic residue [active] 657322003589 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 657322003590 active site 657322003591 substrate binding site [chemical binding]; other site 657322003592 CoA binding site [chemical binding]; other site 657322003593 pyruvate phosphate dikinase; Provisional; Region: PRK09279 657322003594 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 657322003595 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 657322003596 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 657322003597 D5 N terminal like; Region: D5_N; pfam08706 657322003598 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 657322003599 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322003600 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 657322003601 catalytic residues [active] 657322003602 catalytic nucleophile [active] 657322003603 Recombinase; Region: Recombinase; pfam07508 657322003604 Domain of unknown function (DUF932); Region: DUF932; pfam06067 657322003605 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 657322003606 Protein of unknown function (DUF1071); Region: DUF1071; pfam06378 657322003607 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322003608 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 657322003609 catalytic residues [active] 657322003610 catalytic nucleophile [active] 657322003611 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 657322003612 non-specific DNA binding site [nucleotide binding]; other site 657322003613 salt bridge; other site 657322003614 sequence-specific DNA binding site [nucleotide binding]; other site 657322003615 Ras GTPase Activating Domain; Region: RasGAP; cl02569 657322003616 Double zinc ribbon; Region: DZR; pfam12773 657322003617 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657322003618 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657322003619 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657322003620 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]; Region: SEC23; COG5047 657322003621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 657322003622 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322003623 AAA domain; Region: AAA_21; pfam13304 657322003624 Walker A/P-loop; other site 657322003625 ATP binding site [chemical binding]; other site 657322003626 RloB-like protein; Region: RloB; pfam13707 657322003627 transcriptional antiterminator BglG; Provisional; Region: PRK09772 657322003628 CAT RNA binding domain; Region: CAT_RBD; smart01061 657322003629 PRD domain; Region: PRD; pfam00874 657322003630 PRD domain; Region: PRD; pfam00874 657322003631 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 657322003632 active site turn [active] 657322003633 phosphorylation site [posttranslational modification] 657322003634 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 657322003635 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 657322003636 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 657322003637 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 657322003638 beta-galactosidase; Region: BGL; TIGR03356 657322003639 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657322003640 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657322003641 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657322003642 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657322003643 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 657322003644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 657322003645 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 657322003646 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 657322003647 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 657322003648 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 657322003649 Sel1-like repeats; Region: SEL1; smart00671 657322003650 Sel1-like repeats; Region: SEL1; smart00671 657322003651 Sel1-like repeats; Region: SEL1; smart00671 657322003652 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 657322003653 Sel1-like repeats; Region: SEL1; smart00671 657322003654 Sel1-like repeats; Region: SEL1; smart00671 657322003655 Sel1-like repeats; Region: SEL1; smart00671 657322003656 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 657322003657 Sel1-like repeats; Region: SEL1; smart00671 657322003658 Sel1-like repeats; Region: SEL1; smart00671 657322003659 AAA-like domain; Region: AAA_10; pfam12846 657322003660 Domain of unknown function DUF87; Region: DUF87; pfam01935 657322003661 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322003662 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 657322003663 non-specific DNA binding site [nucleotide binding]; other site 657322003664 salt bridge; other site 657322003665 sequence-specific DNA binding site [nucleotide binding]; other site 657322003666 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 657322003667 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; cl17251 657322003668 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 657322003669 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 657322003670 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 657322003671 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 657322003672 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 657322003673 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 657322003674 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 657322003675 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 657322003676 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 657322003677 putative binding surface; other site 657322003678 active site 657322003679 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 657322003680 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 657322003681 NAD binding site [chemical binding]; other site 657322003682 ligand binding site [chemical binding]; other site 657322003683 catalytic site [active] 657322003684 FMN-binding domain; Region: FMN_bind; pfam04205 657322003685 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 657322003686 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657322003687 active site 657322003688 HIGH motif; other site 657322003689 nucleotide binding site [chemical binding]; other site 657322003690 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 657322003691 KMSKS motif; other site 657322003692 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 657322003693 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657322003694 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657322003695 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657322003696 Glucuronate isomerase; Region: UxaC; pfam02614 657322003697 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 657322003698 altronate oxidoreductase; Provisional; Region: PRK03643 657322003699 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 657322003700 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 657322003701 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 657322003702 galactarate dehydratase; Region: galactar-dH20; TIGR03248 657322003703 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 657322003704 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 657322003705 active site 657322003706 catalytic residues [active] 657322003707 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 657322003708 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 657322003709 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657322003710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657322003711 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; cd05466 657322003712 dimerization interface [polypeptide binding]; other site 657322003713 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 657322003714 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 657322003715 GDP-binding site [chemical binding]; other site 657322003716 ACT binding site; other site 657322003717 IMP binding site; other site 657322003718 ribonuclease Z; Reviewed; Region: PRK00055 657322003719 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 657322003720 active site 657322003721 NTP binding site [chemical binding]; other site 657322003722 metal binding triad [ion binding]; metal-binding site 657322003723 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 657322003724 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 657322003725 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 657322003726 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 657322003727 Ligand Binding Site [chemical binding]; other site 657322003728 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 657322003729 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 657322003730 putative ATP binding site [chemical binding]; other site 657322003731 putative substrate interface [chemical binding]; other site 657322003732 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 657322003733 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 657322003734 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 657322003735 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657322003736 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 657322003737 putative active site [active] 657322003738 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 657322003739 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 657322003740 threonine dehydratase; Provisional; Region: PRK08198 657322003741 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 657322003742 tetramer interface [polypeptide binding]; other site 657322003743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322003744 catalytic residue [active] 657322003745 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 657322003746 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 657322003747 homotrimer interaction site [polypeptide binding]; other site 657322003748 putative active site [active] 657322003749 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 657322003750 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657322003751 Walker A motif; other site 657322003752 ATP binding site [chemical binding]; other site 657322003753 Walker B motif; other site 657322003754 arginine finger; other site 657322003755 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 657322003756 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 657322003757 PYR/PP interface [polypeptide binding]; other site 657322003758 dimer interface [polypeptide binding]; other site 657322003759 TPP binding site [chemical binding]; other site 657322003760 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 657322003761 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 657322003762 TPP-binding site [chemical binding]; other site 657322003763 dimer interface [polypeptide binding]; other site 657322003764 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 657322003765 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 657322003766 putative valine binding site [chemical binding]; other site 657322003767 dimer interface [polypeptide binding]; other site 657322003768 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 657322003769 ketol-acid reductoisomerase; Provisional; Region: PRK05479 657322003770 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 657322003771 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 657322003772 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 657322003773 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657322003774 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322003775 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 657322003776 non-specific DNA binding site [nucleotide binding]; other site 657322003777 salt bridge; other site 657322003778 sequence-specific DNA binding site [nucleotide binding]; other site 657322003779 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657322003780 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322003781 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 657322003782 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 657322003783 RelB antitoxin; Region: RelB; cl01171 657322003784 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 657322003785 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322003786 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 657322003787 catalytic residues [active] 657322003788 catalytic nucleophile [active] 657322003789 Recombinase; Region: Recombinase; pfam07508 657322003790 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322003791 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 657322003792 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 657322003793 FeS/SAM binding site; other site 657322003794 HemN C-terminal domain; Region: HemN_C; pfam06969 657322003795 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 657322003796 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 657322003797 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 657322003798 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 657322003799 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 657322003800 putative active site [active] 657322003801 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657322003802 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 657322003803 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 657322003804 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 657322003805 dimer interface [polypeptide binding]; other site 657322003806 conserved gate region; other site 657322003807 putative PBP binding loops; other site 657322003808 ABC-ATPase subunit interface; other site 657322003809 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657322003810 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 657322003811 dimer interface [polypeptide binding]; other site 657322003812 conserved gate region; other site 657322003813 putative PBP binding loops; other site 657322003814 ABC-ATPase subunit interface; other site 657322003815 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 657322003816 Class I aldolases; Region: Aldolase_Class_I; cl17187 657322003817 catalytic residue [active] 657322003818 Domain of unknown function (DUF386); Region: DUF386; cl01047 657322003819 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 657322003820 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 657322003821 putative active site cavity [active] 657322003822 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 657322003823 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657322003824 nucleotide binding site [chemical binding]; other site 657322003825 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 657322003826 active site 657322003827 catalytic triad [active] 657322003828 oxyanion hole [active] 657322003829 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 657322003830 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 657322003831 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 657322003832 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 657322003833 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 657322003834 dimer interface [polypeptide binding]; other site 657322003835 putative anticodon binding site; other site 657322003836 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 657322003837 motif 1; other site 657322003838 active site 657322003839 motif 2; other site 657322003840 motif 3; other site 657322003841 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 657322003842 Low molecular weight phosphatase family; Region: LMWPc; cd00115 657322003843 active site 657322003844 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322003845 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 657322003846 DNA binding site [nucleotide binding] 657322003847 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 657322003848 homopentamer interface [polypeptide binding]; other site 657322003849 active site 657322003850 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 657322003851 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 657322003852 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; cd00641 657322003853 dimerization interface [polypeptide binding]; other site 657322003854 active site 657322003855 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 657322003856 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 657322003857 catalytic motif [active] 657322003858 Zn binding site [ion binding]; other site 657322003859 RibD C-terminal domain; Region: RibD_C; cl17279 657322003860 D-mannonate oxidoreductase; Provisional; Region: PRK08277 657322003861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657322003862 NAD(P) binding site [chemical binding]; other site 657322003863 active site 657322003864 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 657322003865 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657322003866 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322003867 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 657322003868 DNA binding residues [nucleotide binding] 657322003869 BioY family; Region: BioY; pfam02632 657322003870 ornithine carbamoyltransferase; Validated; Region: PRK02102 657322003871 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657322003872 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657322003873 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 657322003874 catalytic motif [active] 657322003875 Zn binding site [ion binding]; other site 657322003876 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 657322003877 elongation factor G; Reviewed; Region: PRK12740 657322003878 G1 box; other site 657322003879 putative GEF interaction site [polypeptide binding]; other site 657322003880 GTP/Mg2+ binding site [chemical binding]; other site 657322003881 Switch I region; other site 657322003882 G2 box; other site 657322003883 G3 box; other site 657322003884 Switch II region; other site 657322003885 G4 box; other site 657322003886 G5 box; other site 657322003887 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 657322003888 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 657322003889 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 657322003890 asparagine synthetase B; Provisional; Region: asnB; PRK09431 657322003891 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 657322003892 dimer interface [polypeptide binding]; other site 657322003893 active site 657322003894 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 657322003895 Ligand Binding Site [chemical binding]; other site 657322003896 Molecular Tunnel; other site 657322003897 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 657322003898 metal binding site 2 [ion binding]; metal-binding site 657322003899 putative DNA binding helix; other site 657322003900 metal binding site 1 [ion binding]; metal-binding site 657322003901 dimer interface [polypeptide binding]; other site 657322003902 structural Zn2+ binding site [ion binding]; other site 657322003903 Transcriptional regulators [Transcription]; Region: GntR; COG1802 657322003904 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657322003905 DNA-binding site [nucleotide binding]; DNA binding site 657322003906 FCD domain; Region: FCD; pfam07729 657322003907 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 657322003908 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322003909 Walker A/P-loop; other site 657322003910 ATP binding site [chemical binding]; other site 657322003911 Q-loop/lid; other site 657322003912 ABC transporter signature motif; other site 657322003913 Walker B; other site 657322003914 D-loop; other site 657322003915 H-loop/switch region; other site 657322003916 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; cd06574 657322003917 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657322003918 TM-ABC transporter signature motif; other site 657322003919 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657322003920 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 657322003921 HD domain; Region: HD_3; cl17350 657322003922 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 657322003923 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 657322003924 FMN binding site [chemical binding]; other site 657322003925 active site 657322003926 catalytic residues [active] 657322003927 substrate binding site [chemical binding]; other site 657322003928 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 657322003929 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 657322003930 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657322003931 active site 657322003932 HIGH motif; other site 657322003933 nucleotide binding site [chemical binding]; other site 657322003934 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 657322003935 KMSK motif region; other site 657322003936 tRNA binding surface [nucleotide binding]; other site 657322003937 DALR anticodon binding domain; Region: DALR_1; smart00836 657322003938 anticodon binding site; other site 657322003939 glutamate racemase; Provisional; Region: PRK00865 657322003940 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 657322003941 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 657322003942 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657322003943 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 657322003944 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 657322003945 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 657322003946 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 657322003947 putative homodimer interface [polypeptide binding]; other site 657322003948 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 657322003949 heterodimer interface [polypeptide binding]; other site 657322003950 homodimer interface [polypeptide binding]; other site 657322003951 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 657322003952 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 657322003953 23S rRNA interface [nucleotide binding]; other site 657322003954 L7/L12 interface [polypeptide binding]; other site 657322003955 putative thiostrepton binding site; other site 657322003956 L25 interface [polypeptide binding]; other site 657322003957 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 657322003958 mRNA/rRNA interface [nucleotide binding]; other site 657322003959 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 657322003960 23S rRNA interface [nucleotide binding]; other site 657322003961 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 657322003962 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 657322003963 core dimer interface [polypeptide binding]; other site 657322003964 peripheral dimer interface [polypeptide binding]; other site 657322003965 L10 interface [polypeptide binding]; other site 657322003966 L11 interface [polypeptide binding]; other site 657322003967 putative EF-Tu interaction site [polypeptide binding]; other site 657322003968 putative EF-G interaction site [polypeptide binding]; other site 657322003969 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 657322003970 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 657322003971 active site 657322003972 nucleophile elbow; other site 657322003973 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657322003974 active site 657322003975 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 657322003976 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 657322003977 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657322003978 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 657322003979 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 657322003980 putative active site [active] 657322003981 cell division protein FtsZ; Region: ftsZ; TIGR00065 657322003982 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 657322003983 nucleotide binding site [chemical binding]; other site 657322003984 SulA interaction site; other site 657322003985 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 657322003986 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 657322003987 active site 657322003988 phosphorylation site [posttranslational modification] 657322003989 intermolecular recognition site; other site 657322003990 dimerization interface [polypeptide binding]; other site 657322003991 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657322003992 Zn2+ binding site [ion binding]; other site 657322003993 Mg2+ binding site [ion binding]; other site 657322003994 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657322003995 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322003996 metal binding site [ion binding]; metal-binding site 657322003997 active site 657322003998 I-site; other site 657322003999 serine O-acetyltransferase; Region: cysE; TIGR01172 657322004000 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 657322004001 trimer interface [polypeptide binding]; other site 657322004002 active site 657322004003 substrate binding site [chemical binding]; other site 657322004004 CoA binding site [chemical binding]; other site 657322004005 dihydroorotase; Validated; Region: pyrC; PRK09357 657322004006 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 657322004007 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 657322004008 active site 657322004009 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 657322004010 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 657322004011 FAD binding pocket [chemical binding]; other site 657322004012 FAD binding motif [chemical binding]; other site 657322004013 phosphate binding motif [ion binding]; other site 657322004014 beta-alpha-beta structure motif; other site 657322004015 NAD binding pocket [chemical binding]; other site 657322004016 Iron coordination center [ion binding]; other site 657322004017 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 657322004018 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 657322004019 heterodimer interface [polypeptide binding]; other site 657322004020 active site 657322004021 FMN binding site [chemical binding]; other site 657322004022 homodimer interface [polypeptide binding]; other site 657322004023 substrate binding site [chemical binding]; other site 657322004024 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657322004025 active site 657322004026 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 657322004027 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 657322004028 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 657322004029 catalytic site [active] 657322004030 subunit interface [polypeptide binding]; other site 657322004031 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 657322004032 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657322004033 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 657322004034 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 657322004035 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657322004036 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657322004037 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 657322004038 substrate binding site [chemical binding]; other site 657322004039 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 657322004040 IHF dimer interface [polypeptide binding]; other site 657322004041 IHF - DNA interface [nucleotide binding]; other site 657322004042 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 657322004043 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657322004044 ATP binding site [chemical binding]; other site 657322004045 Mg++ binding site [ion binding]; other site 657322004046 motif III; other site 657322004047 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 657322004048 nucleotide binding region [chemical binding]; other site 657322004049 ATP-binding site [chemical binding]; other site 657322004050 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 657322004051 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 657322004052 DNA binding residues [nucleotide binding] 657322004053 dimer interface [polypeptide binding]; other site 657322004054 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 657322004055 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 657322004056 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 657322004057 NlpC/P60 family; Region: NLPC_P60; pfam00877 657322004058 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; cl02788 657322004059 catalytic nucleophile [active] 657322004060 Virulence-associated protein E; Region: VirE; pfam05272 657322004061 MobA/MobL family; Region: MobA_MobL; pfam03389 657322004062 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 657322004063 non-specific DNA binding site [nucleotide binding]; other site 657322004064 salt bridge; other site 657322004065 sequence-specific DNA binding site [nucleotide binding]; other site 657322004066 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 657322004067 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322004068 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 657322004069 non-specific DNA binding site [nucleotide binding]; other site 657322004070 salt bridge; other site 657322004071 sequence-specific DNA binding site [nucleotide binding]; other site 657322004072 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 657322004073 Protein of unknown function; Region: DUF3658; pfam12395 657322004074 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657322004075 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 657322004076 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 657322004077 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 657322004078 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 657322004079 active site 657322004080 substrate binding site [chemical binding]; other site 657322004081 metal binding site [ion binding]; metal-binding site 657322004082 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 657322004083 Melibiase; Region: Melibiase; pfam02065 657322004084 Protein of unknown function, DUF624; Region: DUF624; pfam04854 657322004085 Domain of unknown function (DUF377); Region: DUF377; pfam04041 657322004086 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657322004087 active site 657322004088 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 657322004089 dimerization interface [polypeptide binding]; other site 657322004090 putative active cleft [active] 657322004091 Domain of unknown function (DUF377); Region: DUF377; pfam04041 657322004092 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657322004093 active site 657322004094 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657322004095 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 657322004096 dimer interface [polypeptide binding]; other site 657322004097 conserved gate region; other site 657322004098 putative PBP binding loops; other site 657322004099 ABC-ATPase subunit interface; other site 657322004100 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657322004101 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 657322004102 ABC-ATPase subunit interface; other site 657322004103 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657322004104 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 657322004105 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657322004106 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657322004107 DNA binding site [nucleotide binding] 657322004108 domain linker motif; other site 657322004109 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_1; cd06277 657322004110 putative dimerization interface [polypeptide binding]; other site 657322004111 putative ligand binding site [chemical binding]; other site 657322004112 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 657322004113 active site 657322004114 catalytic triad [active] 657322004115 oxyanion hole [active] 657322004116 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 657322004117 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 657322004118 active site 657322004119 catalytic triad [active] 657322004120 oxyanion hole [active] 657322004121 Propionate catabolism activator; Region: PrpR_N; pfam06506 657322004122 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 657322004123 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 657322004124 Walker A motif; other site 657322004125 ATP binding site [chemical binding]; other site 657322004126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 657322004127 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 657322004128 BNR repeat-like domain; Region: BNR_2; pfam13088 657322004129 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 657322004130 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 657322004131 putative active site [active] 657322004132 metal binding site [ion binding]; metal-binding site 657322004133 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 657322004134 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 657322004135 inhibitor site; inhibition site 657322004136 active site 657322004137 dimer interface [polypeptide binding]; other site 657322004138 catalytic residue [active] 657322004139 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 657322004140 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 657322004141 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 657322004142 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; cl17221 657322004143 transmembrane helices; other site 657322004144 active site 657322004145 metal binding site [ion binding]; metal-binding site 657322004146 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; cl14632 657322004147 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 657322004148 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657322004149 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657322004150 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 657322004151 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 657322004152 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 657322004153 putative active site [active] 657322004154 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 657322004155 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 657322004156 putative active site [active] 657322004157 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 657322004158 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 657322004159 active site turn [active] 657322004160 phosphorylation site [posttranslational modification] 657322004161 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 657322004162 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322004163 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657322004164 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 657322004165 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 657322004166 active site 657322004167 dimer interface [polypeptide binding]; other site 657322004168 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 657322004169 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 657322004170 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 657322004171 metal binding site [ion binding]; metal-binding site 657322004172 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 657322004173 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 657322004174 substrate binding site [chemical binding]; other site 657322004175 glutamase interaction surface [polypeptide binding]; other site 657322004176 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 657322004177 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 657322004178 catalytic residues [active] 657322004179 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 657322004180 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 657322004181 putative active site [active] 657322004182 oxyanion strand; other site 657322004183 catalytic triad [active] 657322004184 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 657322004185 putative active site pocket [active] 657322004186 4-fold oligomerization interface [polypeptide binding]; other site 657322004187 metal binding residues [ion binding]; metal-binding site 657322004188 3-fold/trimer interface [polypeptide binding]; other site 657322004189 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 657322004190 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 657322004191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322004192 homodimer interface [polypeptide binding]; other site 657322004193 catalytic residue [active] 657322004194 histidinol dehydrogenase; Region: hisD; TIGR00069 657322004195 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 657322004196 NAD binding site [chemical binding]; other site 657322004197 dimerization interface [polypeptide binding]; other site 657322004198 product binding site; other site 657322004199 substrate binding site [chemical binding]; other site 657322004200 zinc binding site [ion binding]; other site 657322004201 catalytic residues [active] 657322004202 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...; Region: class_II_aaRS-like_core; cl00268 657322004203 active site 657322004204 motif 2; other site 657322004205 motif 3; other site 657322004206 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 657322004207 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 657322004208 Predicted membrane protein [Function unknown]; Region: COG2510 657322004209 Transcriptional regulators [Transcription]; Region: MarR; COG1846 657322004210 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 657322004211 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 657322004212 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; cd03440 657322004213 active site 1 [active] 657322004214 active site 2 [active] 657322004215 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 657322004216 dimerization interface [polypeptide binding]; other site 657322004217 putative DNA binding site [nucleotide binding]; other site 657322004218 putative Zn2+ binding site [ion binding]; other site 657322004219 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; cl00207 657322004220 metal-binding site [ion binding] 657322004221 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 657322004222 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657322004223 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657322004224 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 657322004225 GTP-binding protein YchF; Reviewed; Region: PRK09601 657322004226 YchF GTPase; Region: YchF; cd01900 657322004227 G1 box; other site 657322004228 GTP/Mg2+ binding site [chemical binding]; other site 657322004229 Switch I region; other site 657322004230 G2 box; other site 657322004231 Switch II region; other site 657322004232 G3 box; other site 657322004233 G4 box; other site 657322004234 G5 box; other site 657322004235 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 657322004236 proteasome, beta subunit, bacterial type; Region: 20S_bact_beta; TIGR03690 657322004237 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322004238 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 657322004239 active site 657322004240 phosphorylation site [posttranslational modification] 657322004241 intermolecular recognition site; other site 657322004242 dimerization interface [polypeptide binding]; other site 657322004243 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 657322004244 DNA binding site [nucleotide binding] 657322004245 sensor kinase CusS; Provisional; Region: PRK09835 657322004246 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 657322004247 dimerization interface [polypeptide binding]; other site 657322004248 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 657322004249 dimer interface [polypeptide binding]; other site 657322004250 phosphorylation site [posttranslational modification] 657322004251 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 657322004252 ATP binding site [chemical binding]; other site 657322004253 Mg2+ binding site [ion binding]; other site 657322004254 G-X-G motif; other site 657322004255 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 657322004256 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 657322004257 substrate binding site [chemical binding]; other site 657322004258 hexamer interface [polypeptide binding]; other site 657322004259 metal binding site [ion binding]; metal-binding site 657322004260 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 657322004261 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 657322004262 Putative glycosyl hydrolase domain; Region: DUF4015; cl17870 657322004263 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 657322004264 Uncharacterized conserved protein [Function unknown]; Region: COG4198 657322004265 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 657322004266 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657322004267 ATP binding site [chemical binding]; other site 657322004268 Mg++ binding site [ion binding]; other site 657322004269 motif III; other site 657322004270 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 657322004271 nucleotide binding region [chemical binding]; other site 657322004272 ATP-binding site [chemical binding]; other site 657322004273 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 657322004274 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 657322004275 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 657322004276 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322004277 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657322004278 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 657322004279 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 657322004280 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 657322004281 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657322004282 DNA-binding site [nucleotide binding]; DNA binding site 657322004283 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 657322004284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322004285 homodimer interface [polypeptide binding]; other site 657322004286 catalytic residue [active] 657322004287 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 657322004288 flavoprotein, HI0933 family; Region: TIGR00275 657322004289 stage V sporulation protein T; Region: spore_V_T; TIGR02851 657322004290 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 657322004291 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 657322004292 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 657322004293 GrpE; Region: GrpE; pfam01025 657322004294 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 657322004295 dimer interface [polypeptide binding]; other site 657322004296 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 657322004297 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 657322004298 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 657322004299 nucleotide binding site [chemical binding]; other site 657322004300 NEF interaction site [polypeptide binding]; other site 657322004301 SBD interface [polypeptide binding]; other site 657322004302 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 657322004303 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 657322004304 HSP70 interaction site [polypeptide binding]; other site 657322004305 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 657322004306 substrate binding site [polypeptide binding]; other site 657322004307 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 657322004308 Zn binding sites [ion binding]; other site 657322004309 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 657322004310 dimer interface [polypeptide binding]; other site 657322004311 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 657322004312 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 657322004313 DHHW protein; Region: DHHW; pfam14286 657322004314 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 657322004315 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 657322004316 SpoVA protein; Region: SpoVA; cl04298 657322004317 stage V sporulation protein AD; Provisional; Region: PRK12404 657322004318 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 657322004319 SpoVA protein; Region: SpoVA; cl04298 657322004320 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 657322004321 Germination protease; Region: Peptidase_A25; cl04057 657322004322 stage II sporulation protein P; Region: spore_II_P; TIGR02867 657322004323 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 657322004324 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 657322004325 putative dimer interface [polypeptide binding]; other site 657322004326 putative anticodon binding site; other site 657322004327 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 657322004328 homodimer interface [polypeptide binding]; other site 657322004329 motif 1; other site 657322004330 motif 2; other site 657322004331 active site 657322004332 motif 3; other site 657322004333 Peptidase family M23; Region: Peptidase_M23; pfam01551 657322004334 Putative zinc-finger; Region: zf-HC2; pfam13490 657322004335 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657322004336 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322004337 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 657322004338 DNA binding residues [nucleotide binding] 657322004339 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 657322004340 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 657322004341 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 657322004342 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 657322004343 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 657322004344 dimerization domain swap beta strand [polypeptide binding]; other site 657322004345 regulatory protein interface [polypeptide binding]; other site 657322004346 active site 657322004347 regulatory phosphorylation site [posttranslational modification]; other site 657322004348 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 657322004349 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 657322004350 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 657322004351 active site 657322004352 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 657322004353 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 657322004354 argininosuccinate synthase; Provisional; Region: PRK13820 657322004355 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 657322004356 ANP binding site [chemical binding]; other site 657322004357 Substrate Binding Site II [chemical binding]; other site 657322004358 Substrate Binding Site I [chemical binding]; other site 657322004359 argininosuccinate lyase; Provisional; Region: PRK00855 657322004360 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 657322004361 active sites [active] 657322004362 tetramer interface [polypeptide binding]; other site 657322004363 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 657322004364 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657322004365 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 657322004366 heterotetramer interface [polypeptide binding]; other site 657322004367 active site pocket [active] 657322004368 cleavage site 657322004369 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 657322004370 homohexameric interface [polypeptide binding]; other site 657322004371 feedback inhibition sensing region; other site 657322004372 nucleotide binding site [chemical binding]; other site 657322004373 N-acetyl-L-glutamate binding site [chemical binding]; other site 657322004374 acetylornithine aminotransferase; Provisional; Region: PRK02627 657322004375 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 657322004376 inhibitor-cofactor binding pocket; inhibition site 657322004377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322004378 catalytic residue [active] 657322004379 ornithine carbamoyltransferase; Provisional; Region: PRK00779 657322004380 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657322004381 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657322004382 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 657322004383 GIY-YIG motif/motif A; other site 657322004384 putative active site [active] 657322004385 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 657322004386 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657322004387 active site 657322004388 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657322004389 putative efflux protein, MATE family; Region: matE; TIGR00797 657322004390 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 657322004391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 657322004392 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 657322004393 Putative esterase; Region: Esterase; pfam00756 657322004394 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 657322004395 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 657322004396 homodimer interface [polypeptide binding]; other site 657322004397 substrate-cofactor binding pocket; other site 657322004398 catalytic residue [active] 657322004399 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 657322004400 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 657322004401 motif II; other site 657322004402 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 657322004403 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 657322004404 active site 657322004405 metal binding site [ion binding]; metal-binding site 657322004406 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 657322004407 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 657322004408 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657322004409 nucleotide binding site [chemical binding]; other site 657322004410 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 657322004411 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 657322004412 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 657322004413 DJ-1 family protein; Region: not_thiJ; TIGR01383 657322004414 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 657322004415 conserved cys residue [active] 657322004416 Trp repressor protein; Region: Trp_repressor; cl17266 657322004417 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657322004418 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657322004419 Coenzyme A binding pocket [chemical binding]; other site 657322004420 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 657322004421 FMN binding site [chemical binding]; other site 657322004422 dimer interface [polypeptide binding]; other site 657322004423 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 657322004424 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 657322004425 putative sugar binding sites [chemical binding]; other site 657322004426 Q-X-W motif; other site 657322004427 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 657322004428 putative active site [active] 657322004429 nucleotide binding site [chemical binding]; other site 657322004430 nudix motif; other site 657322004431 putative metal binding site [ion binding]; other site 657322004432 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 657322004433 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 657322004434 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 657322004435 active site turn [active] 657322004436 phosphorylation site [posttranslational modification] 657322004437 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 657322004438 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 657322004439 active site 657322004440 dimer interface [polypeptide binding]; other site 657322004441 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 657322004442 HPr interaction site; other site 657322004443 glycerol kinase (GK) interaction site [polypeptide binding]; other site 657322004444 active site 657322004445 phosphorylation site [posttranslational modification] 657322004446 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 657322004447 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 657322004448 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 657322004449 catalytic core [active] 657322004450 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657322004451 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322004452 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 657322004453 non-specific DNA binding site [nucleotide binding]; other site 657322004454 salt bridge; other site 657322004455 sequence-specific DNA binding site [nucleotide binding]; other site 657322004456 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 657322004457 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657322004458 Int/Topo IB signature motif; other site 657322004459 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322004460 PemK-like protein; Region: PemK; pfam02452 657322004461 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322004462 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 657322004463 non-specific DNA binding site [nucleotide binding]; other site 657322004464 salt bridge; other site 657322004465 sequence-specific DNA binding site [nucleotide binding]; other site 657322004466 Accessory gene regulator B; Region: AgrB; pfam04647 657322004467 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 657322004468 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657322004469 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 657322004470 active site 657322004471 phosphorylation site [posttranslational modification] 657322004472 intermolecular recognition site; other site 657322004473 dimerization interface [polypeptide binding]; other site 657322004474 LytTr DNA-binding domain; Region: LytTR; pfam04397 657322004475 radical SAM/SPASM domain Clo7bot peptide maturase; Region: rSAM_Clo7bot; TIGR04334 657322004476 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 657322004477 FeS/SAM binding site; other site 657322004478 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 657322004479 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657322004480 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 657322004481 Walker A/P-loop; other site 657322004482 ATP binding site [chemical binding]; other site 657322004483 Q-loop/lid; other site 657322004484 ABC transporter signature motif; other site 657322004485 Walker B; other site 657322004486 D-loop; other site 657322004487 H-loop/switch region; other site 657322004488 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657322004489 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657322004490 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 657322004491 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 657322004492 cofactor binding site; other site 657322004493 DNA binding site [nucleotide binding] 657322004494 substrate interaction site [chemical binding]; other site 657322004495 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657322004496 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322004497 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657322004498 putative catalytic residues [active] 657322004499 catalytic nucleophile [active] 657322004500 Recombinase; Region: Recombinase; pfam07508 657322004501 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322004502 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657322004503 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 657322004504 MutS domain I; Region: MutS_I; pfam01624 657322004505 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657322004506 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 657322004507 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657322004508 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657322004509 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 657322004510 ATP binding site [chemical binding]; other site 657322004511 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657322004512 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657322004513 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 657322004514 YodL-like; Region: YodL; pfam14191 657322004515 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 657322004516 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 657322004517 domain I; other site 657322004518 DNA topoisomerase; Region: Topoisom_bac; pfam01131 657322004519 DNA binding groove [nucleotide binding] 657322004520 phosphate binding site [ion binding]; other site 657322004521 domain II; other site 657322004522 domain III; other site 657322004523 nucleotide binding site [chemical binding]; other site 657322004524 catalytic site [active] 657322004525 domain IV; other site 657322004526 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657322004527 YodL-like; Region: YodL; pfam14191 657322004528 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 657322004529 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657322004530 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 657322004531 active site 657322004532 metal binding site [ion binding]; metal-binding site 657322004533 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657322004534 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657322004535 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 657322004536 active site 657322004537 DNA binding site [nucleotide binding] 657322004538 Int/Topo IB signature motif; other site 657322004539 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 657322004540 nucleotide binding region [chemical binding]; other site 657322004541 ATP-binding site [chemical binding]; other site 657322004542 Helicase associated domain; Region: HA; pfam03457 657322004543 Helicase associated domain; Region: HA; pfam03457 657322004544 Helicase associated domain; Region: HA; pfam03457 657322004545 Helicase associated domain; Region: HA; pfam03457 657322004546 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657322004547 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657322004548 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 657322004549 active site 657322004550 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 657322004551 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657322004552 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 657322004553 putative ADP-binding pocket [chemical binding]; other site 657322004554 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657322004555 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 657322004556 active site 657322004557 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 657322004558 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 657322004559 trimer interface [polypeptide binding]; other site 657322004560 active site 657322004561 CoA binding site [chemical binding]; other site 657322004562 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 657322004563 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657322004564 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 657322004565 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 657322004566 putative glycosyl transferase; Provisional; Region: PRK10073 657322004567 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 657322004568 active site 657322004569 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657322004570 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 657322004571 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 657322004572 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 657322004573 active site 657322004574 substrate binding site [chemical binding]; other site 657322004575 metal binding site [ion binding]; metal-binding site 657322004576 Domain of unknown function (DUF955); Region: DUF955; pfam06114 657322004577 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322004578 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 657322004579 catalytic residues [active] 657322004580 catalytic nucleophile [active] 657322004581 Recombinase; Region: Recombinase; pfam07508 657322004582 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322004583 YtxH-like protein; Region: YtxH; cl02079 657322004584 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657322004585 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657322004586 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657322004587 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657322004588 Walker A/P-loop; other site 657322004589 ATP binding site [chemical binding]; other site 657322004590 Q-loop/lid; other site 657322004591 ABC transporter signature motif; other site 657322004592 Walker B; other site 657322004593 D-loop; other site 657322004594 H-loop/switch region; other site 657322004595 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657322004596 FtsX-like permease family; Region: FtsX; pfam02687 657322004597 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322004598 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 657322004599 ATP binding site [chemical binding]; other site 657322004600 G-X-G motif; other site 657322004601 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657322004602 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657322004603 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657322004604 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657322004605 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 657322004606 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657322004607 active site 657322004608 motif I; other site 657322004609 motif II; other site 657322004610 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657322004611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 657322004612 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 657322004613 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 657322004614 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 657322004615 putative dimer interface [polypeptide binding]; other site 657322004616 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 657322004617 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657322004618 DNA-binding site [nucleotide binding]; DNA binding site 657322004619 FCD domain; Region: FCD; pfam07729 657322004620 inner membrane transporter YjeM; Provisional; Region: PRK15238 657322004621 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 657322004622 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 657322004623 active site 657322004624 metal binding site [ion binding]; metal-binding site 657322004625 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657322004626 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 657322004627 Domain of unknown function DUF20; Region: UPF0118; pfam01594 657322004628 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322004629 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657322004630 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 657322004631 homodimer interface [polypeptide binding]; other site 657322004632 homotetramer interface [polypeptide binding]; other site 657322004633 active site pocket [active] 657322004634 cleavage site 657322004635 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 657322004636 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 657322004637 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657322004638 active site 657322004639 metal binding site [ion binding]; metal-binding site 657322004640 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 657322004641 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 657322004642 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657322004643 Y-family of DNA polymerases; Region: PolY; cl12025 657322004644 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 657322004645 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 657322004646 ssDNA binding site; other site 657322004647 generic binding surface II; other site 657322004648 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 657322004649 ATP binding site [chemical binding]; other site 657322004650 putative Mg++ binding site [ion binding]; other site 657322004651 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 657322004652 nucleotide binding region [chemical binding]; other site 657322004653 ATP-binding site [chemical binding]; other site 657322004654 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657322004655 Coenzyme A binding pocket [chemical binding]; other site 657322004656 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]; Region: GyrB; COG0187 657322004657 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 657322004658 Mg2+ binding site [ion binding]; other site 657322004659 G-X-G motif; other site 657322004660 DNA gyrase B; Region: DNA_gyraseB; pfam00204 657322004661 ATP binding site [chemical binding]; other site 657322004662 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 657322004663 active site 657322004664 putative metal-binding site [ion binding]; other site 657322004665 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 657322004666 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 657322004667 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...; Region: TOP4c; cd00187 657322004668 CAP-like domain; other site 657322004669 active site 657322004670 primary dimer interface [polypeptide binding]; other site 657322004671 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 657322004672 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 657322004673 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657322004674 substrate binding pocket [chemical binding]; other site 657322004675 membrane-bound complex binding site; other site 657322004676 hinge residues; other site 657322004677 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322004678 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 657322004679 dimer interface [polypeptide binding]; other site 657322004680 phosphorylation site [posttranslational modification] 657322004681 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 657322004682 ATP binding site [chemical binding]; other site 657322004683 Mg2+ binding site [ion binding]; other site 657322004684 G-X-G motif; other site 657322004685 Response regulator receiver domain; Region: Response_reg; pfam00072 657322004686 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 657322004687 active site 657322004688 phosphorylation site [posttranslational modification] 657322004689 intermolecular recognition site; other site 657322004690 dimerization interface [polypeptide binding]; other site 657322004691 glycyl-tRNA synthetase; Provisional; Region: PRK04173 657322004692 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...; Region: class_II_aaRS-like_core; cl00268 657322004693 motif 1; other site 657322004694 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 657322004695 dimer interface [polypeptide binding]; other site 657322004696 motif 1; other site 657322004697 active site 657322004698 motif 2; other site 657322004699 motif 3; other site 657322004700 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 657322004701 anticodon binding site; other site 657322004702 histidyl-tRNA synthetase; Region: hisS; TIGR00442 657322004703 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...; Region: HisRS-like_core; cd00773 657322004704 dimer interface [polypeptide binding]; other site 657322004705 motif 1; other site 657322004706 active site 657322004707 motif 2; other site 657322004708 motif 3; other site 657322004709 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 657322004710 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 657322004711 putative substrate translocation pore; other site 657322004712 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 657322004713 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 657322004714 GGGtGRT protein; Region: GGGtGRT; pfam14057 657322004715 FMN-binding domain; Region: FMN_bind; pfam04205 657322004716 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 657322004717 L-aspartate oxidase; Provisional; Region: PRK06175 657322004718 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 657322004719 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 657322004720 carboxyltransferase (CT) interaction site; other site 657322004721 biotinylation site [posttranslational modification]; other site 657322004722 HlyD family secretion protein; Region: HlyD_3; pfam13437 657322004723 HlyD family secretion protein; Region: HlyD_2; pfam12700 657322004724 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657322004725 HlyD family secretion protein; Region: HlyD_3; pfam13437 657322004726 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657322004727 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657322004728 Walker A/P-loop; other site 657322004729 ATP binding site [chemical binding]; other site 657322004730 Q-loop/lid; other site 657322004731 ABC transporter signature motif; other site 657322004732 Walker B; other site 657322004733 D-loop; other site 657322004734 H-loop/switch region; other site 657322004735 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657322004736 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657322004737 FtsX-like permease family; Region: FtsX; pfam02687 657322004738 S-layer homology domain; Region: SLH; pfam00395 657322004739 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 657322004740 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657322004741 active site 657322004742 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 657322004743 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 657322004744 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 657322004745 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 657322004746 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 657322004747 MOFRL family; Region: MOFRL; pfam05161 657322004748 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 657322004749 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 657322004750 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 657322004751 Response regulator receiver domain; Region: Response_reg; pfam00072 657322004752 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 657322004753 active site 657322004754 phosphorylation site [posttranslational modification] 657322004755 intermolecular recognition site; other site 657322004756 dimerization interface [polypeptide binding]; other site 657322004757 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 657322004758 NAD-dependent deacetylase; Provisional; Region: PRK00481 657322004759 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 657322004760 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 657322004761 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 657322004762 putative ligand binding site [chemical binding]; other site 657322004763 putative NAD binding site [chemical binding]; other site 657322004764 catalytic site [active] 657322004765 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 657322004766 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657322004767 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 657322004768 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657322004769 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657322004770 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 657322004771 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657322004772 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 657322004773 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657322004774 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657322004775 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 657322004776 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657322004777 catalytic residues [active] 657322004778 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322004779 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 657322004780 active site 657322004781 phosphorylation site [posttranslational modification] 657322004782 intermolecular recognition site; other site 657322004783 dimerization interface [polypeptide binding]; other site 657322004784 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 657322004785 DNA binding site [nucleotide binding] 657322004786 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322004787 HAMP domain; Region: HAMP; pfam00672 657322004788 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 657322004789 dimer interface [polypeptide binding]; other site 657322004790 phosphorylation site [posttranslational modification] 657322004791 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 657322004792 ATP binding site [chemical binding]; other site 657322004793 Mg2+ binding site [ion binding]; other site 657322004794 G-X-G motif; other site 657322004795 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 657322004796 active site 657322004797 catalytic residues [active] 657322004798 prolyl-tRNA synthetase; Provisional; Region: PRK08661 657322004799 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...; Region: ProRS_core_arch_euk; cd00778 657322004800 dimer interface [polypeptide binding]; other site 657322004801 motif 1; other site 657322004802 active site 657322004803 motif 2; other site 657322004804 motif 3; other site 657322004805 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 657322004806 anticodon binding site; other site 657322004807 zinc-binding site [ion binding]; other site 657322004808 acyl carrier protein; Provisional; Region: acpP; PRK00982 657322004809 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 657322004810 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 657322004811 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 657322004812 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 657322004813 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 657322004814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322004815 homodimer interface [polypeptide binding]; other site 657322004816 catalytic residue [active] 657322004817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657322004818 DNA-binding site [nucleotide binding]; DNA binding site 657322004819 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657322004820 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657322004821 Walker A/P-loop; other site 657322004822 ATP binding site [chemical binding]; other site 657322004823 Q-loop/lid; other site 657322004824 ABC transporter signature motif; other site 657322004825 Walker B; other site 657322004826 D-loop; other site 657322004827 H-loop/switch region; other site 657322004828 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 657322004829 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 657322004830 active site 657322004831 catalytic triad [active] 657322004832 oxyanion hole [active] 657322004833 6-phosphofructokinase; Provisional; Region: PRK14072 657322004834 active site 657322004835 ADP/pyrophosphate binding site [chemical binding]; other site 657322004836 allosteric effector site; other site 657322004837 dimerization interface [polypeptide binding]; other site 657322004838 fructose-1,6-bisphosphate binding site; other site 657322004839 6-phosphofructokinase; Provisional; Region: PRK14072 657322004840 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657322004841 active site 657322004842 ADP/pyrophosphate binding site [chemical binding]; other site 657322004843 dimerization interface [polypeptide binding]; other site 657322004844 allosteric effector site; other site 657322004845 fructose-1,6-bisphosphate binding site; other site 657322004846 CHC2 zinc finger; Region: zf-CHC2; cl17510 657322004847 RelB antitoxin; Region: RelB; cl01171 657322004848 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 657322004849 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322004850 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 657322004851 catalytic residues [active] 657322004852 catalytic nucleophile [active] 657322004853 Recombinase; Region: Recombinase; pfam07508 657322004854 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322004855 Domain of unknown function (DUF386); Region: DUF386; cl01047 657322004856 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322004857 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 657322004858 ATP binding site [chemical binding]; other site 657322004859 Mg2+ binding site [ion binding]; other site 657322004860 G-X-G motif; other site 657322004861 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 657322004862 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657322004863 active site 657322004864 phosphorylation site [posttranslational modification] 657322004865 intermolecular recognition site; other site 657322004866 dimerization interface [polypeptide binding]; other site 657322004867 LytTr DNA-binding domain; Region: LytTR; smart00850 657322004868 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 657322004869 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 657322004870 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657322004871 catalytic residue [active] 657322004872 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 657322004873 spermidine synthase; Provisional; Region: PRK00811 657322004874 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 657322004875 S-adenosylmethionine binding site [chemical binding]; other site 657322004876 agmatinase; Region: agmatinase; TIGR01230 657322004877 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 657322004878 putative active site [active] 657322004879 Mn binding site [ion binding]; other site 657322004880 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 657322004881 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 657322004882 NAD(P) binding pocket [chemical binding]; other site 657322004883 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 657322004884 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 657322004885 dimer interface [polypeptide binding]; other site 657322004886 active site 657322004887 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657322004888 catalytic residues [active] 657322004889 substrate binding site [chemical binding]; other site 657322004890 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 657322004891 Stage III sporulation protein D; Region: SpoIIID; cl17560 657322004892 sporulation sigma factor SigG; Reviewed; Region: PRK08215 657322004893 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322004894 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657322004895 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 657322004896 DNA binding residues [nucleotide binding] 657322004897 sporulation sigma factor SigE; Reviewed; Region: PRK08301 657322004898 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322004899 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 657322004900 DNA binding residues [nucleotide binding] 657322004901 NAD synthetase; Reviewed; Region: nadE; PRK02628 657322004902 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 657322004903 multimer interface [polypeptide binding]; other site 657322004904 active site 657322004905 catalytic triad [active] 657322004906 protein interface 1 [polypeptide binding]; other site 657322004907 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 657322004908 homodimer interface [polypeptide binding]; other site 657322004909 NAD binding pocket [chemical binding]; other site 657322004910 ATP binding pocket [chemical binding]; other site 657322004911 Mg binding site [ion binding]; other site 657322004912 active-site loop [active] 657322004913 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 657322004914 Transcriptional regulator [Transcription]; Region: LytR; COG1316 657322004915 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657322004916 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657322004917 active site 657322004918 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 657322004919 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 657322004920 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 657322004921 active site 657322004922 catalytic motif [active] 657322004923 Zn binding site [ion binding]; other site 657322004924 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 657322004925 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657322004926 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657322004927 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 657322004928 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 657322004929 TM-ABC transporter signature motif; other site 657322004930 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657322004931 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 657322004932 TM-ABC transporter signature motif; other site 657322004933 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 657322004934 Chain length determinant protein; Region: Wzz; cl15801 657322004935 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 657322004936 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 657322004937 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 657322004938 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 657322004939 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 657322004940 dimer interface [polypeptide binding]; other site 657322004941 conserved gate region; other site 657322004942 putative PBP binding loops; other site 657322004943 ABC-ATPase subunit interface; other site 657322004944 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 657322004945 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 657322004946 dimer interface [polypeptide binding]; other site 657322004947 conserved gate region; other site 657322004948 putative PBP binding loops; other site 657322004949 ABC-ATPase subunit interface; other site 657322004950 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 657322004951 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657322004952 Walker A/P-loop; other site 657322004953 ATP binding site [chemical binding]; other site 657322004954 Q-loop/lid; other site 657322004955 ABC transporter signature motif; other site 657322004956 Walker B; other site 657322004957 D-loop; other site 657322004958 H-loop/switch region; other site 657322004959 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 657322004960 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 657322004961 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657322004962 Walker A/P-loop; other site 657322004963 ATP binding site [chemical binding]; other site 657322004964 Q-loop/lid; other site 657322004965 ABC transporter signature motif; other site 657322004966 Walker B; other site 657322004967 D-loop; other site 657322004968 H-loop/switch region; other site 657322004969 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 657322004970 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 657322004971 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 657322004972 peptide binding site [polypeptide binding]; other site 657322004973 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 657322004974 metal ion-dependent adhesion site (MIDAS); other site 657322004975 MoxR-like ATPases [General function prediction only]; Region: COG0714 657322004976 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 657322004977 FMN-binding domain; Region: FMN_bind; pfam04205 657322004978 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 657322004979 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 657322004980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657322004981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657322004982 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657322004983 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657322004984 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657322004985 Walker A/P-loop; other site 657322004986 ATP binding site [chemical binding]; other site 657322004987 Q-loop/lid; other site 657322004988 ABC transporter signature motif; other site 657322004989 Walker B; other site 657322004990 D-loop; other site 657322004991 H-loop/switch region; other site 657322004992 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657322004993 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657322004994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322004995 Walker A/P-loop; other site 657322004996 ATP binding site [chemical binding]; other site 657322004997 Q-loop/lid; other site 657322004998 ABC transporter signature motif; other site 657322004999 Walker B; other site 657322005000 D-loop; other site 657322005001 H-loop/switch region; other site 657322005002 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 657322005003 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657322005004 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657322005005 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cd00004 657322005006 active site 657322005007 catalytic site [active] 657322005008 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 657322005009 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 657322005010 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657322005011 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657322005012 PhoU domain; Region: PhoU; pfam01895 657322005013 PhoU domain; Region: PhoU; pfam01895 657322005014 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 657322005015 Transglycosylase; Region: Transgly; pfam00912 657322005016 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 657322005017 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 657322005018 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 657322005019 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 657322005020 homoserine kinase; Provisional; Region: PRK01212 657322005021 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657322005022 aspartate kinase; Reviewed; Region: PRK06635 657322005023 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 657322005024 putative nucleotide binding site [chemical binding]; other site 657322005025 putative catalytic residues [active] 657322005026 putative Mg ion binding site [ion binding]; other site 657322005027 putative aspartate binding site [chemical binding]; other site 657322005028 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 657322005029 putative allosteric regulatory site; other site 657322005030 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 657322005031 putative allosteric regulatory residue; other site 657322005032 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 657322005033 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 657322005034 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 657322005035 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657322005036 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 657322005037 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 657322005038 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 657322005039 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 657322005040 GTPase CgtA; Reviewed; Region: obgE; PRK12297 657322005041 GTP1/OBG; Region: GTP1_OBG; pfam01018 657322005042 Obg GTPase; Region: Obg; cd01898 657322005043 G1 box; other site 657322005044 GTP/Mg2+ binding site [chemical binding]; other site 657322005045 Switch I region; other site 657322005046 G2 box; other site 657322005047 G3 box; other site 657322005048 Switch II region; other site 657322005049 G4 box; other site 657322005050 G5 box; other site 657322005051 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 657322005052 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; cl00258 657322005053 active site 657322005054 metal binding site [ion binding]; metal-binding site 657322005055 dimerization interface [polypeptide binding]; other site 657322005056 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 657322005057 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 657322005058 S-adenosylmethionine binding site [chemical binding]; other site 657322005059 Uncharacterized conserved protein [Function unknown]; Region: COG3270 657322005060 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 657322005061 hypothetical protein; Validated; Region: PRK00110 657322005062 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 657322005063 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 657322005064 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 657322005065 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 657322005066 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657322005067 catalytic residue [active] 657322005068 mannonate dehydratase; Provisional; Region: PRK03906 657322005069 mannonate dehydratase; Region: uxuA; TIGR00695 657322005070 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 657322005071 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 657322005072 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 657322005073 YcxB-like protein; Region: YcxB; pfam14317 657322005074 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 657322005075 dimerization interface [polypeptide binding]; other site 657322005076 Histidine kinase; Region: His_kinase; pfam06580 657322005077 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 657322005078 ATP binding site [chemical binding]; other site 657322005079 Mg2+ binding site [ion binding]; other site 657322005080 G-X-G motif; other site 657322005081 Response regulator receiver domain; Region: Response_reg; pfam00072 657322005082 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 657322005083 active site 657322005084 phosphorylation site [posttranslational modification] 657322005085 intermolecular recognition site; other site 657322005086 dimerization interface [polypeptide binding]; other site 657322005087 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657322005088 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322005089 Right handed beta helix region; Region: Beta_helix; pfam13229 657322005090 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 657322005091 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 657322005092 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 657322005093 DctM-like transporters; Region: DctM; pfam06808 657322005094 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 657322005095 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 657322005096 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 657322005097 active site 657322005098 ATP binding site [chemical binding]; other site 657322005099 substrate binding site [chemical binding]; other site 657322005100 activation loop (A-loop); other site 657322005101 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 657322005102 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 657322005103 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 657322005104 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657322005105 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 657322005106 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 657322005107 active site 657322005108 dimer interface [polypeptide binding]; other site 657322005109 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 657322005110 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 657322005111 active site 657322005112 FMN binding site [chemical binding]; other site 657322005113 substrate binding site [chemical binding]; other site 657322005114 3Fe-4S cluster binding site [ion binding]; other site 657322005115 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 657322005116 domain interface; other site 657322005117 hybrid cluster protein; Provisional; Region: PRK05290 657322005118 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657322005119 ACS interaction site; other site 657322005120 CODH interaction site; other site 657322005121 metal cluster binding site [ion binding]; other site 657322005122 glutamate dehydrogenase; Provisional; Region: PRK09414 657322005123 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 657322005124 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 657322005125 NAD(P) binding site [chemical binding]; other site 657322005126 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 657322005127 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 657322005128 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 657322005129 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 657322005130 active site 657322005131 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657322005132 substrate binding site [chemical binding]; other site 657322005133 catalytic residues [active] 657322005134 dimer interface [polypeptide binding]; other site 657322005135 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 657322005136 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 657322005137 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 657322005138 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 657322005139 homodimer interface [polypeptide binding]; other site 657322005140 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 657322005141 active site pocket [active] 657322005142 Cell division protein ZapA; Region: ZapA; pfam05164 657322005143 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657322005144 Peptidase family U32; Region: Peptidase_U32; pfam01136 657322005145 Collagenase; Region: DUF3656; pfam12392 657322005146 Peptidase family U32; Region: Peptidase_U32; cl03113 657322005147 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 657322005148 trimer interface [polypeptide binding]; other site 657322005149 active site 657322005150 Maf-like protein; Region: Maf; pfam02545 657322005151 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 657322005152 active site 657322005153 dimer interface [polypeptide binding]; other site 657322005154 rod shape-determining protein MreB; Provisional; Region: PRK13927 657322005155 MreB and similar proteins; Region: MreB_like; cd10225 657322005156 nucleotide binding site [chemical binding]; other site 657322005157 Mg binding site [ion binding]; other site 657322005158 putative protofilament interaction site [polypeptide binding]; other site 657322005159 RodZ interaction site [polypeptide binding]; other site 657322005160 rod shape-determining protein MreC; Provisional; Region: PRK13922 657322005161 rod shape-determining protein MreC; Region: MreC; pfam04085 657322005162 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 657322005163 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 657322005164 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657322005165 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 657322005166 active site 657322005167 dimer interfaces [polypeptide binding]; other site 657322005168 catalytic residues [active] 657322005169 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 657322005170 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 657322005171 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 657322005172 RNA/DNA hybrid binding site [nucleotide binding]; other site 657322005173 active site 657322005174 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 657322005175 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657322005176 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 657322005177 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 657322005178 DHH family; Region: DHH; pfam01368 657322005179 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 657322005180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657322005181 UDP-galactopyranose mutase; Region: GLF; pfam03275 657322005182 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 657322005183 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 657322005184 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 657322005185 replicative DNA helicase; Region: DnaB; TIGR00665 657322005186 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 657322005187 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 657322005188 Walker A motif; other site 657322005189 ATP binding site [chemical binding]; other site 657322005190 Walker B motif; other site 657322005191 DNA binding loops [nucleotide binding] 657322005192 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 657322005193 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 657322005194 Ligand Binding Site [chemical binding]; other site 657322005195 TilS substrate C-terminal domain; Region: TilS_C; smart00977 657322005196 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657322005197 active site 657322005198 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657322005199 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657322005200 DNA binding site [nucleotide binding] 657322005201 domain linker motif; other site 657322005202 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 657322005203 dimerization interface [polypeptide binding]; other site 657322005204 ligand binding site [chemical binding]; other site 657322005205 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 657322005206 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657322005207 active site 657322005208 motif I; other site 657322005209 motif II; other site 657322005210 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; cl17915 657322005211 S-ribosylhomocysteinase; Provisional; Region: PRK02260 657322005212 pyruvate kinase; Provisional; Region: PRK06354 657322005213 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; cl17342 657322005214 domain interfaces; other site 657322005215 active site 657322005216 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 657322005217 phosphopentomutase; Provisional; Region: PRK05362 657322005218 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 657322005219 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 657322005220 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 657322005221 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 657322005222 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 657322005223 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 657322005224 TrkA-N domain; Region: TrkA_N; pfam02254 657322005225 TrkA-C domain; Region: TrkA_C; pfam02080 657322005226 TrkA-N domain; Region: TrkA_N; pfam02254 657322005227 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 657322005228 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 657322005229 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 657322005230 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 657322005231 Double zinc ribbon; Region: DZR; pfam12773 657322005232 Repair protein; Region: Repair_PSII; pfam04536 657322005233 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 657322005234 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 657322005235 Walker A motif; other site 657322005236 ATP binding site [chemical binding]; other site 657322005237 Walker B motif; other site 657322005238 arginine finger; other site 657322005239 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 657322005240 Walker A motif; other site 657322005241 ATP binding site [chemical binding]; other site 657322005242 Walker B motif; other site 657322005243 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657322005244 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 657322005245 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 657322005246 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 657322005247 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 657322005248 active site 657322005249 catalytic residue [active] 657322005250 dimer interface [polypeptide binding]; other site 657322005251 Peptidase M15; Region: Peptidase_M15_3; cl01194 657322005252 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 657322005253 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657322005254 Phage holin protein (Holin_LLH); Region: Holin_LLH; cl09890 657322005255 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 657322005256 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 657322005257 Phage-related protein [Function unknown]; Region: COG5412 657322005258 50S ribosomal protein L37Ae; Reviewed; Region: rpl37ae; PRK03976 657322005259 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 657322005260 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 657322005261 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 657322005262 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 657322005263 active site 657322005264 DNA binding site [nucleotide binding] 657322005265 Int/Topo IB signature motif; other site 657322005266 hypothetical protein; Provisional; Region: PRK05590 657322005267 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 657322005268 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The...; Region: SANT; cl17250 657322005269 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657322005270 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657322005271 active site 657322005272 metal binding site [ion binding]; metal-binding site 657322005273 PhoH-like protein; Region: PhoH; cl17668 657322005274 RNA dependent RNA polymerase; Region: RdRP; pfam05183 657322005275 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 657322005276 BRO family, N-terminal domain; Region: Bro-N; cl10591 657322005277 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 657322005278 active site 657322005279 DNA binding site [nucleotide binding] 657322005280 Int/Topo IB signature motif; other site 657322005281 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 657322005282 active site 657322005283 catalytic residues [active] 657322005284 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 657322005285 asparagine synthetase-like protein; Provisional; Region: PTZ00077 657322005286 PemK-like protein; Region: PemK; pfam02452 657322005287 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 657322005288 hypothetical protein; Provisional; Region: PRK06762 657322005289 AAA domain; Region: AAA_33; pfam13671 657322005290 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657322005291 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 657322005292 active site 657322005293 metal binding site [ion binding]; metal-binding site 657322005294 RNA ligase; Region: RNA_lig_T4_1; pfam09511 657322005295 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 657322005296 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 657322005297 cofactor binding site; other site 657322005298 AAA domain; Region: AAA_25; pfam13481 657322005299 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 657322005300 Walker A motif; other site 657322005301 ATP binding site [chemical binding]; other site 657322005302 hypothetical protein; Provisional; Region: PRK08624 657322005303 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 657322005304 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 657322005305 active site 657322005306 metal binding site [ion binding]; metal-binding site 657322005307 interdomain interaction site; other site 657322005308 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 657322005309 DHH family; Region: DHH; pfam01368 657322005310 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657322005311 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 657322005312 active site 657322005313 metal binding site [ion binding]; metal-binding site 657322005314 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 657322005315 DNA ligase; Provisional; Region: 30; PHA02587 657322005316 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 657322005317 DNA binding site [nucleotide binding] 657322005318 active site 657322005319 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 657322005320 DNA binding site [nucleotide binding] 657322005321 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 657322005322 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 657322005323 LemA family; Region: LemA; cl00742 657322005324 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 657322005325 ATP cone domain; Region: ATP-cone; pfam03477 657322005326 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657322005327 SPFH domain / Band 7 family; Region: Band_7; pfam01145 657322005328 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 657322005329 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 657322005330 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 657322005331 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 657322005332 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 657322005333 trimer interface [polypeptide binding]; other site 657322005334 active site 657322005335 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 657322005336 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 657322005337 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 657322005338 NAD(P) binding pocket [chemical binding]; other site 657322005339 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 657322005340 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 657322005341 active site 657322005342 DNA binding site [nucleotide binding] 657322005343 Int/Topo IB signature motif; other site 657322005344 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 657322005345 oligomerisation interface [polypeptide binding]; other site 657322005346 mobile loop; other site 657322005347 roof hairpin; other site 657322005348 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 657322005349 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 657322005350 ring oligomerisation interface [polypeptide binding]; other site 657322005351 ATP/Mg binding site [chemical binding]; other site 657322005352 stacking interactions; other site 657322005353 hinge regions; other site 657322005354 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 657322005355 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 657322005356 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322005357 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 657322005358 non-specific DNA binding site [nucleotide binding]; other site 657322005359 salt bridge; other site 657322005360 sequence-specific DNA binding site [nucleotide binding]; other site 657322005361 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 657322005362 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 657322005363 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 657322005364 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 657322005365 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 657322005366 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 657322005367 active site 657322005368 DNA binding site [nucleotide binding] 657322005369 Int/Topo IB signature motif; other site 657322005370 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 657322005371 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657322005372 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 657322005373 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 657322005374 RNB domain; Region: RNB; pfam00773 657322005375 RNB domain; Region: RNB; pfam00773 657322005376 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 657322005377 RNA binding site [nucleotide binding]; other site 657322005378 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 657322005379 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657322005380 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657322005381 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657322005382 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657322005383 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657322005384 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 657322005385 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 657322005386 Melibiase; Region: Melibiase; pfam02065 657322005387 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322005388 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 657322005389 catalytic residues [active] 657322005390 catalytic nucleophile [active] 657322005391 Recombinase; Region: Recombinase; pfam07508 657322005392 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322005393 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 657322005394 D5 N terminal like; Region: D5_N; cl07360 657322005395 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 657322005396 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 657322005397 CHC2 zinc finger; Region: zf-CHC2; cl17510 657322005398 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322005399 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322005400 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 657322005401 sequence-specific DNA binding site [nucleotide binding]; other site 657322005402 salt bridge; other site 657322005403 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322005404 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; cl17257 657322005405 DNA binding residues [nucleotide binding] 657322005406 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322005407 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 657322005408 active site 657322005409 phosphorylation site [posttranslational modification] 657322005410 intermolecular recognition site; other site 657322005411 dimerization interface [polypeptide binding]; other site 657322005412 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 657322005413 DNA binding site [nucleotide binding] 657322005414 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322005415 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 657322005416 ATP binding site [chemical binding]; other site 657322005417 Mg2+ binding site [ion binding]; other site 657322005418 G-X-G motif; other site 657322005419 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657322005420 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657322005421 Walker A/P-loop; other site 657322005422 ATP binding site [chemical binding]; other site 657322005423 Q-loop/lid; other site 657322005424 ABC transporter signature motif; other site 657322005425 Walker B; other site 657322005426 D-loop; other site 657322005427 H-loop/switch region; other site 657322005428 TRAM domain; Region: TRAM; pfam01938 657322005429 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 657322005430 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 657322005431 S-adenosylmethionine binding site [chemical binding]; other site 657322005432 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657322005433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322005434 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657322005435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322005436 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 657322005437 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 657322005438 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657322005439 4-alpha-glucanotransferase; Provisional; Region: PRK14508 657322005440 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657322005441 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 657322005442 dimer interface [polypeptide binding]; other site 657322005443 conserved gate region; other site 657322005444 putative PBP binding loops; other site 657322005445 ABC-ATPase subunit interface; other site 657322005446 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 657322005447 dimer interface [polypeptide binding]; other site 657322005448 conserved gate region; other site 657322005449 putative PBP binding loops; other site 657322005450 ABC-ATPase subunit interface; other site 657322005451 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 657322005452 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657322005453 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657322005454 DNA binding site [nucleotide binding] 657322005455 domain linker motif; other site 657322005456 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 657322005457 ligand binding site [chemical binding]; other site 657322005458 dimerization interface [polypeptide binding]; other site 657322005459 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 657322005460 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 657322005461 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 657322005462 dimer interface [polypeptide binding]; other site 657322005463 ssDNA binding site [nucleotide binding]; other site 657322005464 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657322005465 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 657322005466 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 657322005467 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 657322005468 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 657322005469 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 657322005470 active site 657322005471 tetramer interface; other site 657322005472 Prokaryotic RING finger family 1; Region: Prok-RING_1; pfam14446 657322005473 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 657322005474 peptide chain release factor 2; Validated; Region: prfB; PRK00578 657322005475 This domain is found in peptide chain release factors; Region: PCRF; smart00937 657322005476 RF-1 domain; Region: RF-1; pfam00472 657322005477 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 657322005478 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 657322005479 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 657322005480 active site 657322005481 phosphorylation site [posttranslational modification] 657322005482 intermolecular recognition site; other site 657322005483 dimerization interface [polypeptide binding]; other site 657322005484 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 657322005485 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 657322005486 non-specific DNA binding site [nucleotide binding]; other site 657322005487 salt bridge; other site 657322005488 sequence-specific DNA binding site [nucleotide binding]; other site 657322005489 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 657322005490 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 657322005491 A new structural DNA glycosylase; Region: AlkD_like; cd06561 657322005492 active site 657322005493 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 657322005494 putative nucleotide binding site [chemical binding]; other site 657322005495 uridine monophosphate binding site [chemical binding]; other site 657322005496 homohexameric interface [polypeptide binding]; other site 657322005497 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...; Region: RRF; cd00520 657322005498 ribosome recycling factor; Reviewed; Region: frr; PRK00083 657322005499 hinge region; other site 657322005500 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 657322005501 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 657322005502 catalytic residue [active] 657322005503 putative FPP diphosphate binding site; other site 657322005504 putative FPP binding hydrophobic cleft; other site 657322005505 dimer interface [polypeptide binding]; other site 657322005506 putative IPP diphosphate binding site; other site 657322005507 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 657322005508 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 657322005509 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 657322005510 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 657322005511 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 657322005512 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 657322005513 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 657322005514 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 657322005515 active site 657322005516 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 657322005517 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 657322005518 putative substrate binding region [chemical binding]; other site 657322005519 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 657322005520 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 657322005521 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 657322005522 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 657322005523 DAK2 domain; Region: Dak2; pfam02734 657322005524 Asp23 family; Region: Asp23; pfam03780 657322005525 FOG: CBS domain [General function prediction only]; Region: COG0517 657322005526 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_30; cd04643 657322005527 putative oxidoreductase; Provisional; Region: PRK12831 657322005528 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657322005529 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657322005530 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 657322005531 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 657322005532 FAD binding pocket [chemical binding]; other site 657322005533 FAD binding motif [chemical binding]; other site 657322005534 phosphate binding motif [ion binding]; other site 657322005535 beta-alpha-beta structure motif; other site 657322005536 NAD binding pocket [chemical binding]; other site 657322005537 Iron coordination center [ion binding]; other site 657322005538 Predicted permeases [General function prediction only]; Region: COG0679 657322005539 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 657322005540 rod shape-determining protein MreB; Provisional; Region: PRK13930 657322005541 MreB and similar proteins; Region: MreB_like; cd10225 657322005542 putative protofilament interaction site [polypeptide binding]; other site 657322005543 nucleotide binding site [chemical binding]; other site 657322005544 RodZ interaction site [polypeptide binding]; other site 657322005545 Mg binding site [ion binding]; other site 657322005546 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 657322005547 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 657322005548 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 657322005549 Carbon starvation protein CstA; Region: CstA; pfam02554 657322005550 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 657322005551 Trp repressor protein; Region: Trp_repressor; cl17266 657322005552 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657322005553 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 657322005554 motif II; other site 657322005555 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 657322005556 active site 657322005557 catalytic triad [active] 657322005558 oxyanion hole [active] 657322005559 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 657322005560 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 657322005561 motif II; other site 657322005562 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 657322005563 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657322005564 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657322005565 ABC transporter; Region: ABC_tran_2; pfam12848 657322005566 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657322005567 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 657322005568 Found in ATP-dependent protease La (LON); Region: LON; smart00464 657322005569 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 657322005570 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 657322005571 Walker A motif; other site 657322005572 ATP binding site [chemical binding]; other site 657322005573 Walker B motif; other site 657322005574 arginine finger; other site 657322005575 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 657322005576 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 657322005577 G1 box; other site 657322005578 GTP/Mg2+ binding site [chemical binding]; other site 657322005579 Switch I region; other site 657322005580 G2 box; other site 657322005581 G3 box; other site 657322005582 Switch II region; other site 657322005583 G4 box; other site 657322005584 G5 box; other site 657322005585 Methyltransferase domain; Region: Methyltransf_23; pfam13489 657322005586 Methyltransferase domain; Region: Methyltransf_18; pfam12847 657322005587 S-adenosylmethionine binding site [chemical binding]; other site 657322005588 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 657322005589 YabP family; Region: YabP; cl06766 657322005590 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 657322005591 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 657322005592 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 657322005593 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 657322005594 dimer interface [polypeptide binding]; other site 657322005595 motif 1; other site 657322005596 active site 657322005597 motif 2; other site 657322005598 motif 3; other site 657322005599 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 657322005600 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 657322005601 putative tRNA-binding site [nucleotide binding]; other site 657322005602 B3/4 domain; Region: B3_4; pfam03483 657322005603 tRNA synthetase B5 domain; Region: B5; pfam03484 657322005604 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 657322005605 dimer interface [polypeptide binding]; other site 657322005606 motif 1; other site 657322005607 motif 3; other site 657322005608 motif 2; other site 657322005609 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 657322005610 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322005611 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657322005612 putative catalytic residues [active] 657322005613 catalytic nucleophile [active] 657322005614 Recombinase; Region: Recombinase; pfam07508 657322005615 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657322005616 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657322005617 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 657322005618 ligand binding site [chemical binding]; other site 657322005619 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 657322005620 Walker A motif; other site 657322005621 ATP binding site [chemical binding]; other site 657322005622 Walker B motif; other site 657322005623 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl17439 657322005624 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 657322005625 CRISPR/Cas system-associated RAMP superfamily protein Csm5; Region: Csm5_III-A; cl17437 657322005626 CRISPR/Cas system-associated RAMP superfamily protein Csm4; Region: Csm4_III-A; cl17438 657322005627 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 657322005628 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 657322005629 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657322005630 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 657322005631 catalytic residues [active] 657322005632 catalytic nucleophile [active] 657322005633 Recombinase; Region: Recombinase; pfam07508 657322005634 CHC2 zinc finger; Region: zf-CHC2; cl17510 657322005635 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 657322005636 D5 N terminal like; Region: D5_N; cl07360 657322005637 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 657322005638 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 657322005639 beta-galactosidase; Region: BGL; TIGR03356 657322005640 Arginosuccinate synthase; Region: Arginosuc_synth; cl17227 657322005641 Arginosuccinate synthase; Region: Arginosuc_synth; cl17227 657322005642 Uncharacterized conserved protein [Function unknown]; Region: COG2966 657322005643 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 657322005644 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 657322005645 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657322005646 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 657322005647 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 657322005648 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 657322005649 active site 657322005650 phosphorylation site [posttranslational modification] 657322005651 intermolecular recognition site; other site 657322005652 dimerization interface [polypeptide binding]; other site 657322005653 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657322005654 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322005655 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322005656 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 657322005657 dimerization interface [polypeptide binding]; other site 657322005658 Histidine kinase; Region: His_kinase; pfam06580 657322005659 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 657322005660 ATP binding site [chemical binding]; other site 657322005661 Mg2+ binding site [ion binding]; other site 657322005662 G-X-G motif; other site 657322005663 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657322005664 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657322005665 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657322005666 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 657322005667 dimer interface [polypeptide binding]; other site 657322005668 conserved gate region; other site 657322005669 putative PBP binding loops; other site 657322005670 ABC-ATPase subunit interface; other site 657322005671 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657322005672 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 657322005673 dimer interface [polypeptide binding]; other site 657322005674 conserved gate region; other site 657322005675 putative PBP binding loops; other site 657322005676 ABC-ATPase subunit interface; other site 657322005677 beta-D-glucuronidase; Provisional; Region: PRK10150 657322005678 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657322005679 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657322005680 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657322005681 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657322005682 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 657322005683 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 657322005684 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 657322005685 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 657322005686 DctM-like transporters; Region: DctM; pfam06808 657322005687 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 657322005688 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 657322005689 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 657322005690 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 657322005691 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657322005692 putative substrate translocation pore; other site 657322005693 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 657322005694 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657322005695 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 657322005696 Glycosyl hydrolase family 43; Region: GH43_3; cd08982 657322005697 active site 657322005698 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657322005699 sugar binding site [chemical binding]; other site 657322005700 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657322005701 beta-D-glucuronidase; Provisional; Region: PRK10150 657322005702 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657322005703 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657322005704 MFS/sugar transport protein; Region: MFS_2; pfam13347 657322005705 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657322005706 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 657322005707 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 657322005708 YSIRK-targeted surface antigen transcriptional regulator; Region: adjacent_YSIRK; TIGR04094 657322005709 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657322005710 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322005711 rhamnulose-1-phosphate aldolase; Provisional; Region: PRK03634 657322005712 intersubunit interface [polypeptide binding]; other site 657322005713 active site 657322005714 Zn2+ binding site [ion binding]; other site 657322005715 L-rhamnose isomerase; Provisional; Region: PRK01076 657322005716 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 657322005717 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 657322005718 N- and C-terminal domain interface [polypeptide binding]; other site 657322005719 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 657322005720 active site 657322005721 putative catalytic site [active] 657322005722 metal binding site [ion binding]; metal-binding site 657322005723 ATP binding site [chemical binding]; other site 657322005724 carbohydrate binding site [chemical binding]; other site 657322005725 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657322005726 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657322005727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322005728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322005729 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 657322005730 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 657322005731 Low molecular weight phosphatase family; Region: LMWPc; cd00115 657322005732 active site 657322005733 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 657322005734 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 657322005735 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 657322005736 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 657322005737 dimer interface [polypeptide binding]; other site 657322005738 active site 657322005739 metal binding site [ion binding]; metal-binding site 657322005740 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 657322005741 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 657322005742 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 657322005743 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657322005744 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657322005745 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 657322005746 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 657322005747 active site 657322005748 FMN binding site [chemical binding]; other site 657322005749 substrate binding site [chemical binding]; other site 657322005750 putative catalytic residue [active] 657322005751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657322005752 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657322005753 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 657322005754 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 657322005755 MFS/sugar transport protein; Region: MFS_2; pfam13347 657322005756 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 657322005757 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 657322005758 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 657322005759 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657322005760 substrate binding site [chemical binding]; other site 657322005761 ATP binding site [chemical binding]; other site 657322005762 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; cl17342 657322005763 active site 657322005764 domain interfaces; other site 657322005765 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 657322005766 active site 657322005767 metal binding site [ion binding]; metal-binding site 657322005768 homotetramer interface [polypeptide binding]; other site 657322005769 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657322005770 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322005771 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 657322005772 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 657322005773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 657322005774 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 657322005775 putative oligomer interface [polypeptide binding]; other site 657322005776 putative RNA binding site [nucleotide binding]; other site 657322005777 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 657322005778 NusA N-terminal domain; Region: NusA_N; pfam08529 657322005779 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 657322005780 RNA binding site [nucleotide binding]; other site 657322005781 homodimer interface [polypeptide binding]; other site 657322005782 NusA-like KH domain; Region: KH_5; pfam13184 657322005783 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 657322005784 G-X-X-G motif; other site 657322005785 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 657322005786 putative RNA binding cleft [nucleotide binding]; other site 657322005787 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 657322005788 translation initiation factor IF-2; Region: IF-2; TIGR00487 657322005789 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 657322005790 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 657322005791 G1 box; other site 657322005792 putative GEF interaction site [polypeptide binding]; other site 657322005793 GTP/Mg2+ binding site [chemical binding]; other site 657322005794 Switch I region; other site 657322005795 G2 box; other site 657322005796 G3 box; other site 657322005797 Switch II region; other site 657322005798 G4 box; other site 657322005799 G5 box; other site 657322005800 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 657322005801 Translation-initiation factor 2; Region: IF-2; pfam11987 657322005802 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 657322005803 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 657322005804 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 657322005805 DHH family; Region: DHH; pfam01368 657322005806 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 657322005807 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 657322005808 RNA binding site [nucleotide binding]; other site 657322005809 active site 657322005810 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 657322005811 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 657322005812 active site 657322005813 Riboflavin kinase; Region: Flavokinase; pfam01687 657322005814 Phosphoglycerate kinase; Region: PGK; pfam00162 657322005815 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 657322005816 substrate binding site [chemical binding]; other site 657322005817 hinge regions; other site 657322005818 ADP binding site [chemical binding]; other site 657322005819 catalytic site [active] 657322005820 triosephosphate isomerase; Provisional; Region: PRK14567 657322005821 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 657322005822 substrate binding site [chemical binding]; other site 657322005823 dimer interface [polypeptide binding]; other site 657322005824 catalytic triad [active] 657322005825 phosphoglyceromutase; Provisional; Region: PRK05434 657322005826 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 657322005827 ApbE family; Region: ApbE; pfam02424 657322005828 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 657322005829 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 657322005830 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 657322005831 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 657322005832 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 657322005833 putative deacylase active site [active] 657322005834 AIR carboxylase; Region: AIRC; pfam00731 657322005835 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 657322005836 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 657322005837 active site 657322005838 tetramer interface [polypeptide binding]; other site 657322005839 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657322005840 active site 657322005841 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 657322005842 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 657322005843 dimerization interface [polypeptide binding]; other site 657322005844 putative ATP binding site [chemical binding]; other site 657322005845 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 657322005846 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 657322005847 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 657322005848 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 657322005849 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 657322005850 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 657322005851 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 657322005852 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 657322005853 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 657322005854 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 657322005855 dimerization interface [polypeptide binding]; other site 657322005856 ATP binding site [chemical binding]; other site 657322005857 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 657322005858 dimerization interface [polypeptide binding]; other site 657322005859 ATP binding site [chemical binding]; other site 657322005860 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 657322005861 putative active site [active] 657322005862 catalytic triad [active] 657322005863 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 657322005864 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 657322005865 tetramer interface [polypeptide binding]; other site 657322005866 active site 657322005867 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 657322005868 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 657322005869 RNA binding surface [nucleotide binding]; other site 657322005870 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 657322005871 active site 657322005872 uracil binding [chemical binding]; other site 657322005873 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 657322005874 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 657322005875 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322005876 Walker A/P-loop; other site 657322005877 ATP binding site [chemical binding]; other site 657322005878 Q-loop/lid; other site 657322005879 ABC transporter signature motif; other site 657322005880 Walker B; other site 657322005881 D-loop; other site 657322005882 H-loop/switch region; other site 657322005883 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 657322005884 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 657322005885 FtsX-like permease family; Region: FtsX; pfam02687 657322005886 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 657322005887 linker region; other site 657322005888 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657322005889 Peptidase family M23; Region: Peptidase_M23; pfam01551 657322005890 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 657322005891 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 657322005892 protein binding site [polypeptide binding]; other site 657322005893 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 657322005894 Catalytic dyad [active] 657322005895 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 657322005896 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 657322005897 Stage II sporulation protein; Region: SpoIID; pfam08486 657322005898 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 657322005899 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 657322005900 dimer interface [polypeptide binding]; other site 657322005901 Citrate synthase; Region: Citrate_synt; pfam00285 657322005902 active site 657322005903 citrylCoA binding site [chemical binding]; other site 657322005904 oxalacetate/citrate binding site [chemical binding]; other site 657322005905 coenzyme A binding site [chemical binding]; other site 657322005906 catalytic triad [active] 657322005907 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 657322005908 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 657322005909 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 657322005910 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 657322005911 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 657322005912 active site 657322005913 substrate binding site [chemical binding]; other site 657322005914 metal binding site [ion binding]; metal-binding site 657322005915 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 657322005916 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 657322005917 active site 657322005918 HIGH motif; other site 657322005919 KMSKS motif; other site 657322005920 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 657322005921 tRNA binding surface [nucleotide binding]; other site 657322005922 anticodon binding site; other site 657322005923 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 657322005924 dimer interface [polypeptide binding]; other site 657322005925 putative tRNA-binding site [nucleotide binding]; other site 657322005926 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657322005927 EamA-like transporter family; Region: EamA; pfam00892 657322005928 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 657322005929 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 657322005930 active site 657322005931 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 657322005932 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 657322005933 ATP synthase subunit C; Region: ATP-synt_C; cl00466 657322005934 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 657322005935 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 657322005936 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 657322005937 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 657322005938 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657322005939 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 657322005940 beta subunit interaction interface [polypeptide binding]; other site 657322005941 Walker A motif; other site 657322005942 ATP binding site [chemical binding]; other site 657322005943 Walker B motif; other site 657322005944 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657322005945 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 657322005946 core domain interface [polypeptide binding]; other site 657322005947 delta subunit interface [polypeptide binding]; other site 657322005948 epsilon subunit interface [polypeptide binding]; other site 657322005949 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 657322005950 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657322005951 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 657322005952 alpha subunit interaction interface [polypeptide binding]; other site 657322005953 Walker A motif; other site 657322005954 ATP binding site [chemical binding]; other site 657322005955 Walker B motif; other site 657322005956 inhibitor binding site; inhibition site 657322005957 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657322005958 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 657322005959 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 657322005960 gamma subunit interface [polypeptide binding]; other site 657322005961 epsilon subunit interface [polypeptide binding]; other site 657322005962 LBP interface [polypeptide binding]; other site 657322005963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 657322005964 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657322005965 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 657322005966 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657322005967 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657322005968 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 657322005969 Walker A/P-loop; other site 657322005970 ATP binding site [chemical binding]; other site 657322005971 Q-loop/lid; other site 657322005972 ABC transporter signature motif; other site 657322005973 Walker B; other site 657322005974 D-loop; other site 657322005975 H-loop/switch region; other site 657322005976 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322005977 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 657322005978 active site 657322005979 phosphorylation site [posttranslational modification] 657322005980 intermolecular recognition site; other site 657322005981 dimerization interface [polypeptide binding]; other site 657322005982 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 657322005983 DNA binding site [nucleotide binding] 657322005984 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657322005985 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 657322005986 dimer interface [polypeptide binding]; other site 657322005987 phosphorylation site [posttranslational modification] 657322005988 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 657322005989 ATP binding site [chemical binding]; other site 657322005990 Mg2+ binding site [ion binding]; other site 657322005991 G-X-G motif; other site 657322005992 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657322005993 S4 RNA-binding domain; Region: S4; smart00363 657322005994 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657322005995 active site 657322005996 hypothetical protein; Reviewed; Region: PRK00024 657322005997 Helix-hairpin-helix motif; Region: HHH; pfam00633 657322005998 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 657322005999 MPN+ (JAMM) motif; other site 657322006000 Zinc-binding site [ion binding]; other site 657322006001 excinuclease ABC subunit B; Provisional; Region: PRK05298 657322006002 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 657322006003 ATP binding site [chemical binding]; other site 657322006004 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 657322006005 nucleotide binding region [chemical binding]; other site 657322006006 ATP-binding site [chemical binding]; other site 657322006007 Ultra-violet resistance protein B; Region: UvrB; pfam12344 657322006008 UvrB/uvrC motif; Region: UVR; pfam02151 657322006009 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 657322006010 sequence-specific DNA binding site [nucleotide binding]; other site 657322006011 salt bridge; other site 657322006012 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 657322006013 3D domain; Region: 3D; cl01439 657322006014 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 657322006015 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 657322006016 Phage terminase small subunit; Region: Phage_terminase; pfam10668 657322006017 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 657322006018 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 657322006019 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 657322006020 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 657322006021 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 657322006022 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 657322006023 Phage tail tube protein FII; Region: Phage_tube; cl01390 657322006024 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 657322006025 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 657322006026 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 657322006027 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 657322006028 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 657322006029 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 657322006030 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 657322006031 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 657322006032 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 657322006033 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 657322006034 nucleic acid binding site [nucleotide binding]; other site 657322006035 Peptidase M15; Region: Peptidase_M15_3; cl01194 657322006036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 657322006037 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 657322006038 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657322006039 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 657322006040 active site 657322006041 DNA binding site [nucleotide binding] 657322006042 Int/Topo IB signature motif; other site 657322006043 Helix-turn-helix domain; Region: HTH_17; pfam12728 657322006044 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657322006045 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 657322006046 DNA binding residues [nucleotide binding] 657322006047 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322006048 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 657322006049 non-specific DNA binding site [nucleotide binding]; other site 657322006050 salt bridge; other site 657322006051 sequence-specific DNA binding site [nucleotide binding]; other site 657322006052 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 657322006053 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 657322006054 active site 657322006055 catalytic tetrad [active] 657322006056 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 657322006057 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; cd00312 657322006058 substrate binding pocket [chemical binding]; other site 657322006059 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657322006060 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657322006061 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657322006062 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 657322006063 catalytic site [active] 657322006064 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 657322006065 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 657322006066 active site 657322006067 catalytic tetrad [active] 657322006068 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 657322006069 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 657322006070 dimer interface [polypeptide binding]; other site 657322006071 active site 657322006072 metal binding site [ion binding]; metal-binding site 657322006073 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657322006074 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657322006075 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657322006076 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657322006077 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; cd05466 657322006078 dimerization interface [polypeptide binding]; other site 657322006079 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 657322006080 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 657322006081 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 657322006082 TrkA-N domain; Region: TrkA_N; pfam02254 657322006083 TrkA-C domain; Region: TrkA_C; pfam02080 657322006084 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 657322006085 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 657322006086 GAF domain; Region: GAF_3; pfam13492 657322006087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 657322006088 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 657322006089 dimer interface [polypeptide binding]; other site 657322006090 phosphorylation site [posttranslational modification] 657322006091 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 657322006092 ATP binding site [chemical binding]; other site 657322006093 Mg2+ binding site [ion binding]; other site 657322006094 G-X-G motif; other site 657322006095 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322006096 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 657322006097 active site 657322006098 phosphorylation site [posttranslational modification] 657322006099 intermolecular recognition site; other site 657322006100 dimerization interface [polypeptide binding]; other site 657322006101 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 657322006102 DNA binding site [nucleotide binding] 657322006103 Phosphotransferase enzyme family; Region: APH; pfam01636 657322006104 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family 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: APH_ChoK_like; cl17270 657322006105 Cupin domain; Region: Cupin_2; pfam07883 657322006106 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657322006107 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322006108 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family; Region: bind_CPR_0540; TIGR03850 657322006109 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657322006110 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 657322006111 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 657322006112 dimer interface [polypeptide binding]; other site 657322006113 conserved gate region; other site 657322006114 putative PBP binding loops; other site 657322006115 ABC-ATPase subunit interface; other site 657322006116 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657322006117 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 657322006118 dimer interface [polypeptide binding]; other site 657322006119 conserved gate region; other site 657322006120 putative PBP binding loops; other site 657322006121 ABC-ATPase subunit interface; other site 657322006122 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 657322006123 Lacto-N-biose phosphorylase; Region: Lact_bio_phlase; pfam09508 657322006124 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 657322006125 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657322006126 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657322006127 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657322006128 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 657322006129 MFS/sugar transport protein; Region: MFS_2; pfam13347 657322006130 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657322006131 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657322006132 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657322006133 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657322006134 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657322006135 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657322006136 Coenzyme A binding pocket [chemical binding]; other site 657322006137 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 657322006138 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 657322006139 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 657322006140 active site 657322006141 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 657322006142 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 657322006143 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 657322006144 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 657322006145 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 657322006146 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 657322006147 active site 657322006148 substrate binding site [chemical binding]; other site 657322006149 metal binding site [ion binding]; metal-binding site 657322006150 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 657322006151 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 657322006152 substrate binding site; other site 657322006153 dimer interface; other site 657322006154 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 657322006155 homotrimer interaction site [polypeptide binding]; other site 657322006156 zinc binding site [ion binding]; other site 657322006157 CDP-binding sites; other site 657322006158 TIGR00159 family protein; Region: TIGR00159 657322006159 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 657322006160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 657322006161 YbbR-like protein; Region: YbbR; pfam07949 657322006162 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 657322006163 hydroxyglutarate oxidase; Provisional; Region: PRK11728 657322006164 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 657322006165 DHH family; Region: DHH; pfam01368 657322006166 DHHA1 domain; Region: DHHA1; pfam02272 657322006167 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 657322006168 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657322006169 Zn2+ binding site [ion binding]; other site 657322006170 Mg2+ binding site [ion binding]; other site 657322006171 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 657322006172 synthetase active site [active] 657322006173 NTP binding site [chemical binding]; other site 657322006174 metal binding site [ion binding]; metal-binding site 657322006175 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 657322006176 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 657322006177 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 657322006178 putative active site [active] 657322006179 dimerization interface [polypeptide binding]; other site 657322006180 putative tRNAtyr binding site [nucleotide binding]; other site 657322006181 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 657322006182 coproporphyrinogen dehydrogenase HemZ; Region: rSAM_HemZ; TIGR03994 657322006183 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 657322006184 FeS/SAM binding site; other site 657322006185 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 657322006186 active site 657322006187 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657322006188 Double zinc ribbon; Region: DZR; pfam12773 657322006189 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 657322006190 IHF - DNA interface [nucleotide binding]; other site 657322006191 IHF dimer interface [polypeptide binding]; other site 657322006192 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 657322006193 RNA binding surface [nucleotide binding]; other site 657322006194 YabP family; Region: YabP; cl06766 657322006195 Septum formation initiator; Region: DivIC; pfam04977 657322006196 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 657322006197 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 657322006198 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; cl17173 657322006199 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 657322006200 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 657322006201 glutaminase active site [active] 657322006202 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 657322006203 dimer interface [polypeptide binding]; other site 657322006204 active site 657322006205 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 657322006206 dimer interface [polypeptide binding]; other site 657322006207 active site 657322006208 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 657322006209 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657322006210 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 657322006211 HlyD family secretion protein; Region: HlyD_3; pfam13437 657322006212 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 657322006213 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 657322006214 putative active site [active] 657322006215 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657322006216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322006217 Walker A/P-loop; other site 657322006218 ATP binding site [chemical binding]; other site 657322006219 Q-loop/lid; other site 657322006220 ABC transporter signature motif; other site 657322006221 Walker B; other site 657322006222 D-loop; other site 657322006223 H-loop/switch region; other site 657322006224 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 657322006225 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 657322006226 G1 box; other site 657322006227 putative GEF interaction site [polypeptide binding]; other site 657322006228 GTP/Mg2+ binding site [chemical binding]; other site 657322006229 Switch I region; other site 657322006230 G2 box; other site 657322006231 G3 box; other site 657322006232 Switch II region; other site 657322006233 G4 box; other site 657322006234 G5 box; other site 657322006235 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 657322006236 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 657322006237 Pleckstrin homology-like domain; Region: PH-like; cl17171 657322006238 Beta-lactamase; Region: Beta-lactamase; cl17358 657322006239 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 657322006240 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 657322006241 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657322006242 putative substrate translocation pore; other site 657322006243 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 657322006244 Mechanosensitive ion channel; Region: MS_channel; pfam00924 657322006245 Predicted membrane protein [Function unknown]; Region: COG3601 657322006246 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657322006247 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322006248 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 657322006249 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 657322006250 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 657322006251 Mg++ binding site [ion binding]; other site 657322006252 putative catalytic motif [active] 657322006253 putative substrate binding site [chemical binding]; other site 657322006254 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 657322006255 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 657322006256 Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain; Region: THF_DHG_CYH_C; pfam02882 657322006257 NAD(P) binding pocket [chemical binding]; other site 657322006258 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 657322006259 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 657322006260 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 657322006261 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 657322006262 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 657322006263 dimer interface [polypeptide binding]; other site 657322006264 active site 657322006265 glycine-pyridoxal phosphate binding site [chemical binding]; other site 657322006266 folate binding site [chemical binding]; other site 657322006267 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 657322006268 hypothetical protein; Provisional; Region: PRK06851 657322006269 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 657322006270 Walker A motif; other site 657322006271 ATP binding site [chemical binding]; other site 657322006272 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 657322006273 Fe-S cluster binding site [ion binding]; other site 657322006274 active site 657322006275 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 657322006276 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 657322006277 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 657322006278 Walker A motif; other site 657322006279 ATP binding site [chemical binding]; other site 657322006280 Walker B motif; other site 657322006281 arginine finger; other site 657322006282 hypothetical protein; Validated; Region: PRK00153 657322006283 recombination protein RecR; Reviewed; Region: recR; PRK00076 657322006284 RecR protein; Region: RecR; pfam02132 657322006285 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 657322006286 putative active site [active] 657322006287 putative metal-binding site [ion binding]; other site 657322006288 tetramer interface [polypeptide binding]; other site 657322006289 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 657322006290 SmpB-tmRNA interface; other site 657322006291 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 657322006292 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 657322006293 PLD-like domain; Region: PLDc_2; pfam13091 657322006294 putative active site [active] 657322006295 catalytic site [active] 657322006296 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 657322006297 PLD-like domain; Region: PLDc_2; pfam13091 657322006298 putative active site [active] 657322006299 catalytic site [active] 657322006300 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 657322006301 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657322006302 substrate binding pocket [chemical binding]; other site 657322006303 membrane-bound complex binding site; other site 657322006304 hinge residues; other site 657322006305 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 657322006306 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322006307 Walker A/P-loop; other site 657322006308 ATP binding site [chemical binding]; other site 657322006309 Q-loop/lid; other site 657322006310 ABC transporter signature motif; other site 657322006311 Walker B; other site 657322006312 D-loop; other site 657322006313 H-loop/switch region; other site 657322006314 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322006315 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657322006316 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 657322006317 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 657322006318 ligand binding site [chemical binding]; other site 657322006319 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 657322006320 substrate binding site [chemical binding]; other site 657322006321 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 657322006322 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 657322006323 active site 657322006324 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 657322006325 TSCPD domain; Region: TSCPD; cl14834 657322006326 myosin-cross-reactive antigen; Provisional; Region: PRK13977 657322006327 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 657322006328 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 657322006329 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 657322006330 FeS/SAM binding site; other site 657322006331 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 657322006332 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 657322006333 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 657322006334 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657322006335 catalytic residue [active] 657322006336 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 657322006337 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 657322006338 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 657322006339 dimer interface [polypeptide binding]; other site 657322006340 substrate binding site [chemical binding]; other site 657322006341 ATP binding site [chemical binding]; other site 657322006342 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_9; cd12170 657322006343 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 657322006344 putative ligand binding site [chemical binding]; other site 657322006345 putative NAD binding site [chemical binding]; other site 657322006346 L-aspartate dehydrogenase; Provisional; Region: PRK13303 657322006347 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 657322006348 Domain of unknown function DUF108; Region: DUF108; pfam01958 657322006349 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 657322006350 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; cl17186 657322006351 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...; Region: CBS_pair_IMPDH_2; cd04602 657322006352 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...; Region: IMPDH; cd00381 657322006353 active site 657322006354 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 657322006355 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 657322006356 active site 657322006357 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657322006358 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 657322006359 ATP binding site [chemical binding]; other site 657322006360 putative Mg++ binding site [ion binding]; other site 657322006361 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322006362 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 657322006363 non-specific DNA binding site [nucleotide binding]; other site 657322006364 salt bridge; other site 657322006365 sequence-specific DNA binding site [nucleotide binding]; other site 657322006366 SprT homologues; Region: SprT; cl01182 657322006367 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 657322006368 Bacterial sugar transferase; Region: Bac_transf; cl00939 657322006369 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 657322006370 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 657322006371 active site 657322006372 substrate binding site [chemical binding]; other site 657322006373 metal binding site [ion binding]; metal-binding site 657322006374 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 657322006375 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 657322006376 active site 657322006377 Cupin domain; Region: Cupin_2; cl17218 657322006378 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 657322006379 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 657322006380 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657322006381 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657322006382 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_4; cd03795 657322006383 putative ADP-binding pocket [chemical binding]; other site 657322006384 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657322006385 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 657322006386 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657322006387 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 657322006388 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 657322006389 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 657322006390 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657322006391 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 657322006392 non-specific DNA binding site [nucleotide binding]; other site 657322006393 salt bridge; other site 657322006394 sequence-specific DNA binding site [nucleotide binding]; other site 657322006395 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 657322006396 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 657322006397 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 657322006398 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 657322006399 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 657322006400 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 657322006401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322006402 Walker A/P-loop; other site 657322006403 ATP binding site [chemical binding]; other site 657322006404 Q-loop/lid; other site 657322006405 ABC transporter signature motif; other site 657322006406 Walker B; other site 657322006407 D-loop; other site 657322006408 H-loop/switch region; other site 657322006409 TOBE domain; Region: TOBE_2; pfam08402 657322006410 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 657322006411 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 657322006412 dimer interface [polypeptide binding]; other site 657322006413 conserved gate region; other site 657322006414 putative PBP binding loops; other site 657322006415 ABC-ATPase subunit interface; other site 657322006416 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 657322006417 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 657322006418 dimer interface [polypeptide binding]; other site 657322006419 conserved gate region; other site 657322006420 putative PBP binding loops; other site 657322006421 ABC-ATPase subunit interface; other site 657322006422 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 657322006423 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 657322006424 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 657322006425 active site 1 [active] 657322006426 active site 2 [active] 657322006427 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 657322006428 active site 2 [active] 657322006429 active site 1 [active] 657322006430 Chromate transporter; Region: Chromate_transp; pfam02417 657322006431 Chromate transporter; Region: Chromate_transp; pfam02417 657322006432 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 657322006433 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657322006434 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657322006435 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657322006436 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 657322006437 Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-; Region: Asp_Lys_Asn_RS_N; cd04100 657322006438 Dimer interface [polypeptide binding]; other site 657322006439 anticodon binding site; other site 657322006440 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...; Region: class_II_aaRS-like_core; cl00268 657322006441 motif 1; other site 657322006442 dimer interface [polypeptide binding]; other site 657322006443 active site 657322006444 motif 2; other site 657322006445 motif 3; other site 657322006446 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 657322006447 Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539 657322006448 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 657322006449 RNA binding site [nucleotide binding]; other site 657322006450 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 657322006451 RNA binding site [nucleotide binding]; other site 657322006452 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 657322006453 peptide chain release factor 1; Validated; Region: prfA; PRK00591 657322006454 PCRF domain; Region: PCRF; pfam03462 657322006455 RF-1 domain; Region: RF-1; pfam00472 657322006456 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 657322006457 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 657322006458 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 657322006459 dephospho-CoA kinase; Region: TIGR00152 657322006460 CoA-binding site [chemical binding]; other site 657322006461 ATP-binding [chemical binding]; other site 657322006462 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 657322006463 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 657322006464 oligomer interface [polypeptide binding]; other site 657322006465 putative active site [active] 657322006466 metal binding site [ion binding]; metal-binding site 657322006467 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 657322006468 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 657322006469 DNA binding residues [nucleotide binding] 657322006470 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 657322006471 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 657322006472 NodB motif; other site 657322006473 active site 657322006474 catalytic site [active] 657322006475 Zn binding site [ion binding]; other site 657322006476 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657322006477 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657322006478 metal binding site [ion binding]; metal-binding site 657322006479 active site 657322006480 I-site; other site 657322006481 CTP synthetase; Validated; Region: pyrG; PRK05380 657322006482 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 657322006483 Catalytic site [active] 657322006484 active site 657322006485 UTP binding site [chemical binding]; other site 657322006486 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 657322006487 active site 657322006488 putative oxyanion hole; other site 657322006489 catalytic triad [active] 657322006490 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; cl17736 657322006491 active site 657322006492 phosphorylation site [posttranslational modification] 657322006493 intermolecular recognition site; other site 657322006494 dimerization interface [polypeptide binding]; other site 657322006495 ANTAR domain; Region: ANTAR; pfam03861 657322006496 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 657322006497 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 657322006498 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 657322006499 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 657322006500 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 657322006501 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 657322006502 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 657322006503 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 657322006504 putative RNA binding site [nucleotide binding]; other site 657322006505 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657322006506 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 657322006507 putative active site [active] 657322006508 putative metal binding residues [ion binding]; other site 657322006509 signature motif; other site 657322006510 putative dimer interface [polypeptide binding]; other site 657322006511 putative phosphate binding site [ion binding]; other site 657322006512 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 657322006513 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 657322006514 Coenzyme A binding pocket [chemical binding]; other site 657322006515 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 657322006516 Precorrin-8X methylmutase; Region: CbiC; pfam02570 657322006517 cobyric acid synthase; Provisional; Region: PRK00784 657322006518 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 657322006519 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 657322006520 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 657322006521 catalytic triad [active] 657322006522 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 657322006523 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 657322006524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322006525 homodimer interface [polypeptide binding]; other site 657322006526 catalytic residue [active] 657322006527 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 657322006528 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 657322006529 catalytic core [active] 657322006530 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 657322006531 cobalamin synthase; Reviewed; Region: cobS; PRK00235 657322006532 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 657322006533 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 657322006534 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 657322006535 active site pocket [active] 657322006536 putative dimer interface [polypeptide binding]; other site 657322006537 putative cataytic base [active] 657322006538 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 657322006539 recA bacterial DNA recombination protein; Region: RecA; cl17211 657322006540 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 657322006541 catalytic triad [active] 657322006542 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 657322006543 active site 657322006544 putative homodimer interface [polypeptide binding]; other site 657322006545 SAM binding site [chemical binding]; other site 657322006546 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 657322006547 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 657322006548 S-adenosylmethionine binding site [chemical binding]; other site 657322006549 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 657322006550 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 657322006551 active site 657322006552 SAM binding site [chemical binding]; other site 657322006553 homodimer interface [polypeptide binding]; other site 657322006554 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 657322006555 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 657322006556 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 657322006557 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 657322006558 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 657322006559 active site 657322006560 SAM binding site [chemical binding]; other site 657322006561 homodimer interface [polypeptide binding]; other site 657322006562 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 657322006563 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 657322006564 Walker A/P-loop; other site 657322006565 ATP binding site [chemical binding]; other site 657322006566 Q-loop/lid; other site 657322006567 ABC transporter signature motif; other site 657322006568 Walker B; other site 657322006569 D-loop; other site 657322006570 H-loop/switch region; other site 657322006571 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 657322006572 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 657322006573 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 657322006574 ABC-ATPase subunit interface; other site 657322006575 dimer interface [polypeptide binding]; other site 657322006576 putative PBP binding regions; other site 657322006577 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 657322006578 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 657322006579 intersubunit interface [polypeptide binding]; other site 657322006580 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 657322006581 heme-binding site [chemical binding]; other site 657322006582 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 657322006583 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 657322006584 active site 657322006585 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 657322006586 active site 657322006587 N-terminal domain interface [polypeptide binding]; other site 657322006588 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 657322006589 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657322006590 Walker A/P-loop; other site 657322006591 ATP binding site [chemical binding]; other site 657322006592 Q-loop/lid; other site 657322006593 ABC transporter signature motif; other site 657322006594 Walker B; other site 657322006595 D-loop; other site 657322006596 H-loop/switch region; other site 657322006597 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 657322006598 galactokinase; Provisional; Region: PRK05101 657322006599 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 657322006600 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657322006601 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 657322006602 heat shock protein 90; Provisional; Region: PRK05218 657322006603 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 657322006604 ATP binding site [chemical binding]; other site 657322006605 Mg2+ binding site [ion binding]; other site 657322006606 G-X-G motif; other site 657322006607 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 657322006608 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 657322006609 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657322006610 HD domain; Region: HD; pfam01966 657322006611 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 657322006612 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657322006613 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657322006614 Coenzyme A binding pocket [chemical binding]; other site 657322006615 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 657322006616 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657322006617 RmuC family; Region: RmuC; pfam02646 657322006618 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 657322006619 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657322006620 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657322006621 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 657322006622 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657322006623 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657322006624 Aluminium resistance protein; Region: Alum_res; pfam06838 657322006625 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 657322006626 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 657322006627 substrate binding site [chemical binding]; other site 657322006628 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 657322006629 putative catalytic cysteine [active] 657322006630 gamma-glutamyl kinase; Provisional; Region: PRK05429 657322006631 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 657322006632 nucleotide binding site [chemical binding]; other site 657322006633 homotetrameric interface [polypeptide binding]; other site 657322006634 putative phosphate binding site [ion binding]; other site 657322006635 putative allosteric binding site; other site 657322006636 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 657322006637 pyrroline-5-carboxylate reductase; Region: PLN02688 657322006638 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 657322006639 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 657322006640 FeS/SAM binding site; other site 657322006641 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 657322006642 Domain of unknown function DUF20; Region: UPF0118; pfam01594 657322006643 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 657322006644 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 657322006645 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 657322006646 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 657322006647 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 657322006648 active site 657322006649 (T/H)XGH motif; other site 657322006650 putative acyltransferase; Provisional; Region: PRK05790 657322006651 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 657322006652 dimer interface [polypeptide binding]; other site 657322006653 active site 657322006654 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 657322006655 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 657322006656 substrate binding site [chemical binding]; other site 657322006657 oxyanion hole (OAH) forming residues; other site 657322006658 trimer interface [polypeptide binding]; other site 657322006659 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 657322006660 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 657322006661 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 657322006662 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 657322006663 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 657322006664 FAD binding site [chemical binding]; other site 657322006665 homotetramer interface [polypeptide binding]; other site 657322006666 substrate binding pocket [chemical binding]; other site 657322006667 catalytic base [active] 657322006668 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 657322006669 Ligand binding site [chemical binding]; other site 657322006670 Electron transfer flavoprotein domain; Region: ETF; pfam01012 657322006671 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 657322006672 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 657322006673 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 657322006674 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 657322006675 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 657322006676 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 657322006677 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 657322006678 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657322006679 Zn2+ binding site [ion binding]; other site 657322006680 Mg2+ binding site [ion binding]; other site 657322006681 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 657322006682 DNA primase, catalytic core; Region: dnaG; TIGR01391 657322006683 CHC2 zinc finger; Region: zf-CHC2; pfam01807 657322006684 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 657322006685 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 657322006686 active site 657322006687 metal binding site [ion binding]; metal-binding site 657322006688 interdomain interaction site; other site 657322006689 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 657322006690 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 657322006691 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 657322006692 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 657322006693 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657322006694 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657322006695 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 657322006696 DNA binding residues [nucleotide binding] 657322006697 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; cl17585 657322006698 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 657322006699 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 657322006700 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; cl17585 657322006701 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 657322006702 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 657322006703 RPB1 interaction site [polypeptide binding]; other site 657322006704 RPB10 interaction site [polypeptide binding]; other site 657322006705 RPB11 interaction site [polypeptide binding]; other site 657322006706 RPB3 interaction site [polypeptide binding]; other site 657322006707 RPB12 interaction site [polypeptide binding]; other site 657322006708 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 657322006709 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 657322006710 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 657322006711 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 657322006712 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 657322006713 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 657322006714 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 657322006715 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 657322006716 DNA binding site [nucleotide binding] 657322006717 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 657322006718 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 657322006719 S17 interaction site [polypeptide binding]; other site 657322006720 S8 interaction site; other site 657322006721 16S rRNA interaction site [nucleotide binding]; other site 657322006722 streptomycin interaction site [chemical binding]; other site 657322006723 23S rRNA interaction site [nucleotide binding]; other site 657322006724 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 657322006725 30S ribosomal protein S7; Validated; Region: PRK05302 657322006726 elongation factor G; Reviewed; Region: PRK00007 657322006727 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 657322006728 G1 box; other site 657322006729 putative GEF interaction site [polypeptide binding]; other site 657322006730 GTP/Mg2+ binding site [chemical binding]; other site 657322006731 Switch I region; other site 657322006732 G2 box; other site 657322006733 G3 box; other site 657322006734 Switch II region; other site 657322006735 G4 box; other site 657322006736 G5 box; other site 657322006737 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 657322006738 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 657322006739 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 657322006740 elongation factor Tu; Reviewed; Region: PRK00049 657322006741 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 657322006742 G1 box; other site 657322006743 GEF interaction site [polypeptide binding]; other site 657322006744 GTP/Mg2+ binding site [chemical binding]; other site 657322006745 Switch I region; other site 657322006746 G2 box; other site 657322006747 G3 box; other site 657322006748 Switch II region; other site 657322006749 G4 box; other site 657322006750 G5 box; other site 657322006751 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 657322006752 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 657322006753 Antibiotic Binding Site [chemical binding]; other site 657322006754 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 657322006755 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 657322006756 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657322006757 catalytic residue [active] 657322006758 uracil-xanthine permease; Region: ncs2; TIGR00801 657322006759 Rubredoxin [Energy production and conversion]; Region: COG1773 657322006760 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 657322006761 iron binding site [ion binding]; other site 657322006762 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 657322006763 Rubrerythrin [Energy production and conversion]; Region: COG1592 657322006764 diiron binding motif [ion binding]; other site 657322006765 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657322006766 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 657322006767 metal-binding site [ion binding] 657322006768 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657322006769 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 657322006770 motif II; other site 657322006771 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 657322006772 metal-binding site [ion binding] 657322006773 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; cl00846 657322006774 putative homotetramer interface [polypeptide binding]; other site 657322006775 putative homodimer interface [polypeptide binding]; other site 657322006776 putative allosteric switch controlling residues; other site 657322006777 putative metal binding site [ion binding]; other site 657322006778 putative homodimer-homodimer interface [polypeptide binding]; other site 657322006779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 657322006780 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 657322006781 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 657322006782 Peptidase family M50; Region: Peptidase_M50; pfam02163 657322006783 active site 657322006784 putative substrate binding region [chemical binding]; other site 657322006785 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 657322006786 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 657322006787 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 657322006788 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 657322006789 RNA binding surface [nucleotide binding]; other site 657322006790 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 657322006791 active site 657322006792 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657322006793 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 657322006794 active site 657322006795 phosphorylation site [posttranslational modification] 657322006796 intermolecular recognition site; other site 657322006797 LytTr DNA-binding domain; Region: LytTR; pfam04397 657322006798 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 657322006799 ATP binding site [chemical binding]; other site 657322006800 Mg2+ binding site [ion binding]; other site 657322006801 G-X-G motif; other site 657322006802 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 657322006803 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 657322006804 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 657322006805 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 657322006806 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657322006807 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657322006808 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657322006809 DNA-binding site [nucleotide binding]; DNA binding site 657322006810 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 657322006811 UTRA domain; Region: UTRA; pfam07702 657322006812 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657322006813 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657322006814 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 657322006815 Part of AAA domain; Region: AAA_19; pfam13245 657322006816 Family description; Region: UvrD_C_2; pfam13538 657322006817 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 657322006818 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 657322006819 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 657322006820 TMP-binding site; other site 657322006821 ATP-binding site [chemical binding]; other site 657322006822 YceG-like family; Region: YceG; pfam02618 657322006823 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 657322006824 dimerization interface [polypeptide binding]; other site 657322006825 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657322006826 Peptidase family U32; Region: Peptidase_U32; pfam01136 657322006827 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657322006828 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 657322006829 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 657322006830 motif II; other site 657322006831 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 657322006832 Sulfatase; Region: Sulfatase; pfam00884 657322006833 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 657322006834 rRNA interaction site [nucleotide binding]; other site 657322006835 S8 interaction site; other site 657322006836 putative laminin-1 binding site; other site 657322006837 elongation factor Ts; Provisional; Region: tsf; PRK09377 657322006838 UBA/TS-N domain; Region: UBA; pfam00627 657322006839 Elongation factor TS; Region: EF_TS; pfam00889 657322006840 Elongation factor TS; Region: EF_TS; pfam00889 657322006841 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 657322006842 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 657322006843 carboxyltransferase (CT) interaction site; other site 657322006844 biotinylation site [posttranslational modification]; other site 657322006845 oxaloacetate decarboxylase; Provisional; Region: PRK12331 657322006846 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 657322006847 active site 657322006848 catalytic residues [active] 657322006849 metal binding site [ion binding]; metal-binding site 657322006850 homodimer binding site [polypeptide binding]; other site 657322006851 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 657322006852 hypothetical protein; Provisional; Region: PRK11820 657322006853 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 657322006854 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 657322006855 Domain of unknown function (DUF370); Region: DUF370; cl00898 657322006856 Guanylate kinase; Region: Guanylate_kin; pfam00625 657322006857 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 657322006858 catalytic site [active] 657322006859 G-X2-G-X-G-K; other site 657322006860 primosome assembly protein PriA; Validated; Region: PRK05580 657322006861 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 657322006862 ATP binding site [chemical binding]; other site 657322006863 putative Mg++ binding site [ion binding]; other site 657322006864 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657322006865 ATP-binding site [chemical binding]; other site 657322006866 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 657322006867 active site 657322006868 catalytic residues [active] 657322006869 metal binding site [ion binding]; metal-binding site 657322006870 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 657322006871 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 657322006872 putative active site [active] 657322006873 substrate binding site [chemical binding]; other site 657322006874 putative cosubstrate binding site; other site 657322006875 catalytic site [active] 657322006876 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 657322006877 substrate binding site [chemical binding]; other site 657322006878 16S rRNA methyltransferase B; Provisional; Region: PRK14902 657322006879 NusB family; Region: NusB; pfam01029 657322006880 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 657322006881 S-adenosylmethionine binding site [chemical binding]; other site 657322006882 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 657322006883 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 657322006884 FeS/SAM binding site; other site 657322006885 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; cd00143 657322006886 Protein phosphatase 2C; Region: PP2C; pfam00481 657322006887 active site 657322006888 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 657322006889 Catalytic domain of Protein Kinases; Region: PKc; cd00180 657322006890 active site 657322006891 ATP binding site [chemical binding]; other site 657322006892 substrate binding site [chemical binding]; other site 657322006893 activation loop (A-loop); other site 657322006894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 657322006895 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 657322006896 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 657322006897 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 657322006898 GTPase RsgA; Reviewed; Region: PRK00098 657322006899 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 657322006900 RNA binding site [nucleotide binding]; other site 657322006901 homodimer interface [polypeptide binding]; other site 657322006902 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 657322006903 GTPase/Zn-binding domain interface [polypeptide binding]; other site 657322006904 GTP/Mg2+ binding site [chemical binding]; other site 657322006905 G4 box; other site 657322006906 G5 box; other site 657322006907 G1 box; other site 657322006908 Switch I region; other site 657322006909 G2 box; other site 657322006910 G3 box; other site 657322006911 Switch II region; other site 657322006912 Thiamine pyrophosphokinase; Region: TPK; cd07995 657322006913 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 657322006914 active site 657322006915 dimerization interface [polypeptide binding]; other site 657322006916 thiamine binding site [chemical binding]; other site 657322006917 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 657322006918 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 657322006919 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 657322006920 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 657322006921 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 657322006922 Asp23 family; Region: Asp23; pfam03780 657322006923 transcription antitermination factor NusB; Region: nusB; TIGR01951 657322006924 putative RNA binding site [nucleotide binding]; other site 657322006925 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 657322006926 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 657322006927 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 657322006928 substrate binding pocket [chemical binding]; other site 657322006929 chain length determination region; other site 657322006930 substrate-Mg2+ binding site; other site 657322006931 catalytic residues [active] 657322006932 aspartate-rich region 1; other site 657322006933 active site lid residues [active] 657322006934 aspartate-rich region 2; other site 657322006935 Divergent PAP2 family; Region: DUF212; pfam02681 657322006936 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 657322006937 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 657322006938 TPP-binding site; other site 657322006939 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 657322006940 PYR/PP interface [polypeptide binding]; other site 657322006941 dimer interface [polypeptide binding]; other site 657322006942 TPP binding site [chemical binding]; other site 657322006943 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657322006944 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 657322006945 ATP-NAD kinase; Region: NAD_kinase; pfam01513 657322006946 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 657322006947 arginine repressor; Provisional; Region: argR; PRK00441 657322006948 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 657322006949 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 657322006950 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 657322006951 Walker A/P-loop; other site 657322006952 ATP binding site [chemical binding]; other site 657322006953 Q-loop/lid; other site 657322006954 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 657322006955 ABC transporter signature motif; other site 657322006956 Walker B; other site 657322006957 D-loop; other site 657322006958 H-loop/switch region; other site 657322006959 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 657322006960 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 657322006961 active site 657322006962 HIGH motif; other site 657322006963 dimer interface [polypeptide binding]; other site 657322006964 KMSKS motif; other site 657322006965 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 657322006966 RNA binding surface [nucleotide binding]; other site 657322006967 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 657322006968 HPr interaction site; other site 657322006969 glycerol kinase (GK) interaction site [polypeptide binding]; other site 657322006970 active site 657322006971 phosphorylation site [posttranslational modification] 657322006972 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 657322006973 putative allosteric regulatory site; other site 657322006974 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 657322006975 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 657322006976 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 657322006977 putative active site [active] 657322006978 putative metal binding site [ion binding]; other site 657322006979 dihydrodipicolinate reductase; Provisional; Region: PRK00048 657322006980 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 657322006981 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 657322006982 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 657322006983 dihydrodipicolinate synthase; Region: dapA; TIGR00674 657322006984 dimer interface [polypeptide binding]; other site 657322006985 active site 657322006986 catalytic residue [active] 657322006987 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 657322006988 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657322006989 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 657322006990 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 657322006991 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 657322006992 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 657322006993 Preprotein translocase subunit; Region: YajC; pfam02699 657322006994 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 657322006995 DNA repair protein RadA; Provisional; Region: PRK11823 657322006996 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 657322006997 Walker A motif; other site 657322006998 ATP binding site [chemical binding]; other site 657322006999 Walker B motif; other site 657322007000 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 657322007001 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 657322007002 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 657322007003 active site 657322007004 DNA binding site [nucleotide binding] 657322007005 Int/Topo IB signature motif; other site 657322007006 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 657322007007 MutS domain III; Region: MutS_III; pfam05192 657322007008 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 657322007009 Walker A/P-loop; other site 657322007010 ATP binding site [chemical binding]; other site 657322007011 Q-loop/lid; other site 657322007012 ABC transporter signature motif; other site 657322007013 Walker B; other site 657322007014 D-loop; other site 657322007015 H-loop/switch region; other site 657322007016 Smr domain; Region: Smr; pfam01713 657322007017 Recombination protein O N terminal; Region: RecO_N; pfam11967 657322007018 DNA repair protein RecO; Region: reco; TIGR00613 657322007019 Recombination protein O C terminal; Region: RecO_C; pfam02565 657322007020 metal-binding heat shock protein; Provisional; Region: PRK00016 657322007021 Predicted transcriptional regulators [Transcription]; Region: COG1695 657322007022 Transcriptional regulator PadR-like family; Region: PadR; cl17335 657322007023 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 657322007024 Domain of unknown function, B. Theta Gene description (DUF3873); Region: DUF3873; pfam12989 657322007025 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 657322007026 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 657322007027 XdhC Rossmann domain; Region: XdhC_C; pfam13478 657322007028 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 657322007029 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 657322007030 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 657322007031 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 657322007032 CPxP motif; other site 657322007033 DsrE/DsrF-like family; Region: DrsE; cl00672 657322007034 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 657322007035 selenophosphate synthetase; Provisional; Region: PRK00943 657322007036 dimerization interface [polypeptide binding]; other site 657322007037 putative ATP binding site [chemical binding]; other site 657322007038 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 657322007039 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 657322007040 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 657322007041 catalytic loop [active] 657322007042 iron binding site [ion binding]; other site 657322007043 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 657322007044 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 657322007045 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 657322007046 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 657322007047 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 657322007048 Ligand binding site; other site 657322007049 metal-binding site 657322007050 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 657322007051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657322007052 NAD(P) binding site [chemical binding]; other site 657322007053 active site 657322007054 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 657322007055 AzlC protein; Region: AzlC; pfam03591 657322007056 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 657322007057 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 657322007058 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 657322007059 ATP binding site [chemical binding]; other site 657322007060 putative Mg++ binding site [ion binding]; other site 657322007061 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657322007062 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657322007063 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657322007064 Virulence protein [General function prediction only]; Region: COG3943 657322007065 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 657322007066 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 657322007067 HsdM N-terminal domain; Region: HsdM_N; pfam12161 657322007068 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657322007069 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 657322007070 AAA domain; Region: AAA_25; pfam13481 657322007071 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 657322007072 ATP binding site [chemical binding]; other site 657322007073 Walker A motif; other site 657322007074 Walker B motif; other site 657322007075 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 657322007076 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657322007077 Int/Topo IB signature motif; other site 657322007078 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 657322007079 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 657322007080 non-specific DNA binding site [nucleotide binding]; other site 657322007081 salt bridge; other site 657322007082 sequence-specific DNA binding site [nucleotide binding]; other site 657322007083 GMP synthase; Reviewed; Region: guaA; PRK00074 657322007084 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 657322007085 AMP/PPi binding site [chemical binding]; other site 657322007086 candidate oxyanion hole; other site 657322007087 catalytic triad [active] 657322007088 potential glutamine specificity residues [chemical binding]; other site 657322007089 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 657322007090 ATP Binding subdomain [chemical binding]; other site 657322007091 Ligand Binding sites [chemical binding]; other site 657322007092 Dimerization subdomain; other site 657322007093 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 657322007094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 657322007095 6-phosphofructokinase; Provisional; Region: PRK03202 657322007096 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657322007097 active site 657322007098 ADP/pyrophosphate binding site [chemical binding]; other site 657322007099 dimerization interface [polypeptide binding]; other site 657322007100 allosteric effector site; other site 657322007101 fructose-1,6-bisphosphate binding site; other site 657322007102 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 657322007103 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 657322007104 active site 657322007105 PHP Thumb interface [polypeptide binding]; other site 657322007106 metal binding site [ion binding]; metal-binding site 657322007107 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 657322007108 generic binding surface II; other site 657322007109 generic binding surface I; other site 657322007110 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 657322007111 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 657322007112 FAD binding domain; Region: FAD_binding_4; pfam01565 657322007113 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 657322007114 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 657322007115 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 657322007116 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 657322007117 Hpr binding site; other site 657322007118 active site 657322007119 homohexamer subunit interaction site [polypeptide binding]; other site 657322007120 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 657322007121 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657322007122 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657322007123 PhoU domain; Region: PhoU; pfam01895 657322007124 PhoU domain; Region: PhoU; pfam01895 657322007125 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657322007126 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 657322007127 active site 657322007128 phosphorylation site [posttranslational modification] 657322007129 intermolecular recognition site; other site 657322007130 dimerization interface [polypeptide binding]; other site 657322007131 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 657322007132 DNA binding site [nucleotide binding] 657322007133 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 657322007134 dimer interface [polypeptide binding]; other site 657322007135 phosphorylation site [posttranslational modification] 657322007136 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 657322007137 ATP binding site [chemical binding]; other site 657322007138 Mg2+ binding site [ion binding]; other site 657322007139 G-X-G motif; other site 657322007140 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 657322007141 Predicted membrane protein [Function unknown]; Region: COG2323 657322007142 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 657322007143 ATP cone domain; Region: ATP-cone; pfam03477 657322007144 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 657322007145 Protein export membrane protein; Region: SecD_SecF; cl14618 657322007146 Protein export membrane protein; Region: SecD_SecF; cl14618 657322007147 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 657322007148 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 657322007149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322007150 homodimer interface [polypeptide binding]; other site 657322007151 catalytic residue [active] 657322007152 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 657322007153 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 657322007154 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 657322007155 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 657322007156 Walker A motif; other site 657322007157 ATP binding site [chemical binding]; other site 657322007158 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657322007159 Clp protease; Region: CLP_protease; pfam00574 657322007160 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 657322007161 oligomer interface [polypeptide binding]; other site 657322007162 active site residues [active] 657322007163 trigger factor; Provisional; Region: tig; PRK01490 657322007164 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657322007165 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 657322007166 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 657322007167 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 657322007168 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657322007169 catalytic residue [active] 657322007170 hypothetical protein; Reviewed; Region: PRK12497 657322007171 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 657322007172 RNA/DNA hybrid binding site [nucleotide binding]; other site 657322007173 active site 657322007174 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 657322007175 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 657322007176 GTP/Mg2+ binding site [chemical binding]; other site 657322007177 G4 box; other site 657322007178 G5 box; other site 657322007179 G1 box; other site 657322007180 Switch I region; other site 657322007181 G2 box; other site 657322007182 Protein of unknown function (DUF1647); Region: DUF1647; pfam07801 657322007183 G3 box; other site 657322007184 Switch II region; other site 657322007185 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 657322007186 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 657322007187 Catalytic site [active] 657322007188 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 657322007189 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 657322007190 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 657322007191 active site 657322007192 Peptidase family M50; Region: Peptidase_M50; pfam02163 657322007193 putative substrate binding region [chemical binding]; other site 657322007194 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657322007195 Peptidase family M23; Region: Peptidase_M23; pfam01551 657322007196 polyphosphate kinase; Provisional; Region: PRK05443 657322007197 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 657322007198 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 657322007199 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 657322007200 putative active site [active] 657322007201 catalytic site [active] 657322007202 Catalytic C-terminal domain, second repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C2_unchar; cd09169 657322007203 putative domain interface [polypeptide binding]; other site 657322007204 putative active site [active] 657322007205 catalytic site [active] 657322007206 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 657322007207 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 657322007208 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657322007209 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 657322007210 RNA binding surface [nucleotide binding]; other site 657322007211 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657322007212 active site 657322007213 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 657322007214 DivIVA protein; Region: DivIVA; pfam05103 657322007215 DivIVA domain; Region: DivI1A_domain; TIGR03544 657322007216 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 657322007217 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 657322007218 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 657322007219 RNA binding surface [nucleotide binding]; other site 657322007220 Protein of unknown function (DUF552); Region: DUF552; pfam04472 657322007221 HlyD family secretion protein; Region: HlyD_2; pfam12700 657322007222 putative membrane fusion protein; Region: TIGR02828 657322007223 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 657322007224 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 657322007225 ATP binding site [chemical binding]; other site 657322007226 Mg2+ binding site [ion binding]; other site 657322007227 G-X-G motif; other site 657322007228 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 657322007229 ATP binding site [chemical binding]; other site 657322007230 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 657322007231 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 657322007232 MutS domain I; Region: MutS_I; pfam01624 657322007233 MutS domain II; Region: MutS_II; pfam05188 657322007234 MutS domain III; Region: MutS_III; pfam05192 657322007235 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 657322007236 Walker A/P-loop; other site 657322007237 ATP binding site [chemical binding]; other site 657322007238 Q-loop/lid; other site 657322007239 ABC transporter signature motif; other site 657322007240 Walker B; other site 657322007241 D-loop; other site 657322007242 H-loop/switch region; other site 657322007243 Protein of unknown function (DUF964); Region: DUF964; cl01483 657322007244 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 657322007245 metal binding site 2 [ion binding]; metal-binding site 657322007246 putative DNA binding helix; other site 657322007247 metal binding site 1 [ion binding]; metal-binding site 657322007248 dimer interface [polypeptide binding]; other site 657322007249 structural Zn2+ binding site [ion binding]; other site 657322007250 recombination factor protein RarA; Reviewed; Region: PRK13342 657322007251 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 657322007252 Walker A motif; other site 657322007253 ATP binding site [chemical binding]; other site 657322007254 Walker B motif; other site 657322007255 arginine finger; other site 657322007256 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 657322007257 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 657322007258 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 657322007259 minor groove reading motif; other site 657322007260 helix-hairpin-helix signature motif; other site 657322007261 substrate binding pocket [chemical binding]; other site 657322007262 active site 657322007263 Predicted membrane protein [Function unknown]; Region: COG2261 657322007264 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 657322007265 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 657322007266 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 657322007267 Walker A motif; other site 657322007268 ATP binding site [chemical binding]; other site 657322007269 Walker B motif; other site 657322007270 arginine finger; other site 657322007271 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 657322007272 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 657322007273 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657322007274 active site 657322007275 metal binding site [ion binding]; metal-binding site 657322007276 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 657322007277 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 657322007278 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657322007279 substrate binding site [chemical binding]; other site 657322007280 ATP binding site [chemical binding]; other site 657322007281 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 657322007282 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657322007283 Walker A/P-loop; other site 657322007284 ATP binding site [chemical binding]; other site 657322007285 Q-loop/lid; other site 657322007286 ABC transporter signature motif; other site 657322007287 Walker B; other site 657322007288 D-loop; other site 657322007289 H-loop/switch region; other site 657322007290 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 657322007291 zinc binding site [ion binding]; other site 657322007292 putative ligand binding site [chemical binding]; other site 657322007293 Flagellin N-methylase; Region: FliB; cl00497 657322007294 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657322007295 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657322007296 Predicted transcriptional regulators [Transcription]; Region: COG1695 657322007297 Transcriptional regulator PadR-like family; Region: PadR; pfam03551