-- dump date 20120504_140646 -- class Genbank::misc_feature -- table misc_feature_note -- id note 522306000001 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 522306000002 multiple promoter invertase; Provisional; Region: mpi; PRK13413 522306000003 catalytic residues [active] 522306000004 catalytic nucleophile [active] 522306000005 Presynaptic Site I dimer interface [polypeptide binding]; other site 522306000006 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 522306000007 Synaptic Flat tetramer interface [polypeptide binding]; other site 522306000008 Synaptic Site I dimer interface [polypeptide binding]; other site 522306000009 DNA binding site [nucleotide binding] 522306000010 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 522306000011 DNA-binding interface [nucleotide binding]; DNA binding site 522306000012 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 522306000013 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 522306000014 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306000015 transposase; Provisional; Region: PRK06526 522306000016 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 522306000017 Walker A motif; other site 522306000018 ATP binding site [chemical binding]; other site 522306000019 RelB antitoxin; Region: RelB; cl01171 522306000020 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 522306000021 Outer membrane efflux protein; Region: OEP; pfam02321 522306000022 Outer membrane efflux protein; Region: OEP; pfam02321 522306000023 Nitrogen regulatory protein P-II; Region: P-II; cl00412 522306000024 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 522306000025 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 522306000026 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306000027 High-affinity nickel-transport protein; Region: NicO; cl00964 522306000028 High-affinity nickel-transport protein; Region: NicO; cl00964 522306000029 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 522306000030 putative homotetramer interface [polypeptide binding]; other site 522306000031 putative homodimer interface [polypeptide binding]; other site 522306000032 putative metal binding site [ion binding]; other site 522306000033 putative homodimer-homodimer interface [polypeptide binding]; other site 522306000034 putative allosteric switch controlling residues; other site 522306000035 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 522306000036 catalytic residues [active] 522306000037 catalytic nucleophile [active] 522306000038 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 522306000039 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 522306000040 DNA binding residues [nucleotide binding] 522306000041 dimer interface [polypeptide binding]; other site 522306000042 putative metal binding site [ion binding]; other site 522306000043 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522306000044 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306000045 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306000046 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 522306000047 pyruvate carboxylase subunit B; Validated; Region: PRK09282 522306000048 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306000049 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 522306000050 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306000051 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 522306000052 Nitrogen regulatory protein P-II; Region: P-II; cl00412 522306000053 Nitrogen regulatory protein P-II; Region: P-II; smart00938 522306000054 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 522306000055 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 522306000056 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 522306000057 DNA binding site [nucleotide binding] 522306000058 Int/Topo IB signature motif; other site 522306000059 active site 522306000060 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 522306000061 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 522306000062 ParA-like protein; Provisional; Region: PHA02518 522306000063 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 522306000064 P-loop; other site 522306000065 Magnesium ion binding site [ion binding]; other site 522306000066 Replication initiator protein A; Region: RPA; cl02339 522306000067 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 522306000068 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 522306000069 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 522306000070 DNA binding residues [nucleotide binding] 522306000071 dimer interface [polypeptide binding]; other site 522306000072 putative metal binding site [ion binding]; other site 522306000073 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522306000074 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 522306000075 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306000076 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306000077 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 522306000078 active site 522306000079 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 522306000080 lipoprotein signal peptidase; Provisional; Region: PRK14787 522306000081 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 522306000082 catalytic residues [active] 522306000083 catalytic nucleophile [active] 522306000084 Presynaptic Site I dimer interface [polypeptide binding]; other site 522306000085 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 522306000086 Synaptic Flat tetramer interface [polypeptide binding]; other site 522306000087 Synaptic Site I dimer interface [polypeptide binding]; other site 522306000088 Predicted transcriptional regulator [Transcription]; Region: COG4190 522306000089 Helix-turn-helix domains; Region: HTH; cl00088 522306000090 ParA-like protein; Provisional; Region: PHA02518 522306000091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306000092 TrfA protein; Region: TrfA; pfam07042 522306000093 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 522306000094 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 522306000095 IHF dimer interface [polypeptide binding]; other site 522306000096 IHF - DNA interface [nucleotide binding]; other site 522306000097 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 522306000098 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 522306000099 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 522306000100 catalytic residues [active] 522306000101 catalytic nucleophile [active] 522306000102 Helix-turn-helix domains; Region: HTH; cl00088 522306000103 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 522306000104 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 522306000105 oligomeric interface; other site 522306000106 putative active site [active] 522306000107 homodimer interface [polypeptide binding]; other site 522306000108 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 522306000109 active site 522306000110 NTP binding site [chemical binding]; other site 522306000111 metal binding triad [ion binding]; metal-binding site 522306000112 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 522306000113 active site 522306000114 NTP binding site [chemical binding]; other site 522306000115 metal binding triad [ion binding]; metal-binding site 522306000116 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 522306000117 non-specific DNA binding site [nucleotide binding]; other site 522306000118 salt bridge; other site 522306000119 sequence-specific DNA binding site [nucleotide binding]; other site 522306000120 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 522306000121 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 522306000122 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 522306000123 multiple promoter invertase; Provisional; Region: mpi; PRK13413 522306000124 catalytic residues [active] 522306000125 catalytic nucleophile [active] 522306000126 Presynaptic Site I dimer interface [polypeptide binding]; other site 522306000127 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 522306000128 Synaptic Flat tetramer interface [polypeptide binding]; other site 522306000129 Synaptic Site I dimer interface [polypeptide binding]; other site 522306000130 DNA binding site [nucleotide binding] 522306000131 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 522306000132 DNA-binding interface [nucleotide binding]; DNA binding site 522306000133 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 522306000134 active site 522306000135 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 522306000136 lipoprotein signal peptidase; Provisional; Region: PRK14787 522306000137 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522306000138 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 522306000139 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306000140 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306000141 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 522306000142 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 522306000143 DNA binding residues [nucleotide binding] 522306000144 dimer interface [polypeptide binding]; other site 522306000145 putative metal binding site [ion binding]; other site 522306000146 Domain of unknown function (DUF955); Region: DUF955; cl01076 522306000147 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 522306000148 AAA domain; Region: AAA_22; pfam13401 522306000149 Walker A motif; other site 522306000150 ATP binding site [chemical binding]; other site 522306000151 Walker B motif; other site 522306000152 arginine finger; other site 522306000153 Helix-turn-helix domains; Region: HTH; cl00088 522306000154 Integrase core domain; Region: rve; cl01316 522306000155 Integrase core domain; Region: rve_3; cl15866 522306000156 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 522306000157 Ligand Binding Site [chemical binding]; other site 522306000158 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 522306000159 putative FMN binding site [chemical binding]; other site 522306000160 NADPH bind site [chemical binding]; other site 522306000161 N-glycosylase/DNA lyase; Provisional; Region: PRK01229 522306000162 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 522306000163 helix-hairpin-helix signature motif; other site 522306000164 substrate binding pocket [chemical binding]; other site 522306000165 active site 522306000166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306000167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306000168 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 522306000169 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 522306000170 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 522306000171 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 522306000172 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 522306000173 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 522306000174 NADP binding site [chemical binding]; other site 522306000175 homodimer interface [polypeptide binding]; other site 522306000176 active site 522306000177 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 522306000178 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 522306000179 Transposase; Region: DEDD_Tnp_IS110; pfam01548 522306000180 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 522306000181 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 522306000182 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 522306000183 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 522306000184 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 522306000185 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 522306000186 active site 522306000187 catalytic triad [active] 522306000188 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 522306000189 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 522306000190 Walker A motif; other site 522306000191 ATP binding site [chemical binding]; other site 522306000192 Walker B motif; other site 522306000193 arginine finger; other site 522306000194 Helix-turn-helix domains; Region: HTH; cl00088 522306000195 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 522306000196 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 522306000197 putative active site [active] 522306000198 catalytic site [active] 522306000199 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 522306000200 ATP binding site [chemical binding]; other site 522306000201 putative Mg++ binding site [ion binding]; other site 522306000202 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 522306000203 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 522306000204 nucleotide binding region [chemical binding]; other site 522306000205 ATP-binding site [chemical binding]; other site 522306000206 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 522306000207 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 522306000208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306000209 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 522306000210 Divergent AAA domain; Region: AAA_4; pfam04326 522306000211 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 522306000212 Protein of unknown function (DUF499); Region: DUF499; pfam04465 522306000213 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 522306000214 putative homodimer interface [polypeptide binding]; other site 522306000215 putative active site [active] 522306000216 catalytic site [active] 522306000217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306000218 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 522306000219 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 522306000220 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 522306000221 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 522306000222 Int/Topo IB signature motif; other site 522306000223 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 522306000224 active site 522306000225 NTP binding site [chemical binding]; other site 522306000226 metal binding triad [ion binding]; metal-binding site 522306000227 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 522306000228 TrfA protein; Region: TrfA; pfam07042 522306000229 Replication initiator protein A; Region: RPA; cl02339 522306000230 ParB-like partition proteins; Region: parB_part; TIGR00180 522306000231 ParB-like nuclease domain; Region: ParBc; cl02129 522306000232 ParA-like protein; Provisional; Region: PHA02518 522306000233 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 522306000234 P-loop; other site 522306000235 Magnesium ion binding site [ion binding]; other site 522306000236 conjugal transfer protein TrbA; Provisional; Region: PRK13890 522306000237 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 522306000238 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 522306000239 P-loop; other site 522306000240 Magnesium ion binding site [ion binding]; other site 522306000241 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 522306000242 Magnesium ion binding site [ion binding]; other site 522306000243 ParB-like nuclease domain; Region: ParBc; cl02129 522306000244 KorB domain; Region: KorB; pfam08535 522306000245 KorB C-terminal beta-barrel domain; Region: KorB_C; pfam06613 522306000246 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 522306000247 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 522306000248 putative active site [active] 522306000249 putative metal binding site [ion binding]; other site 522306000250 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 522306000251 active site 522306000252 metal binding site [ion binding]; metal-binding site 522306000253 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306000254 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 522306000255 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 522306000256 catalytic residues [active] 522306000257 catalytic nucleophile [active] 522306000258 Recombinase; Region: Recombinase; pfam07508 522306000259 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 522306000260 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 522306000261 DNA binding residues [nucleotide binding] 522306000262 Winged helix-turn helix; Region: HTH_29; pfam13551 522306000263 Helix-turn-helix domains; Region: HTH; cl00088 522306000264 Helix-turn-helix domains; Region: HTH; cl00088 522306000265 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 522306000266 Walker A motif; other site 522306000267 ATP binding site [chemical binding]; other site 522306000268 Walker B motif; other site 522306000269 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 522306000270 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522306000271 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 522306000272 Walker A motif; other site 522306000273 ATP binding site [chemical binding]; other site 522306000274 Walker B motif; other site 522306000275 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306000276 Integrase core domain; Region: rve; cl01316 522306000277 Transcriptional activator TraM; Region: Activator-TraM; cl11943 522306000278 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 522306000279 P-loop; other site 522306000280 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 522306000281 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 522306000282 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 522306000283 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 522306000284 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306000285 Walker A motif; other site 522306000286 ATP binding site [chemical binding]; other site 522306000287 Walker B motif; other site 522306000288 conjugal transfer peptidase TraF; Provisional; Region: PRK13884 522306000289 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 522306000290 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 522306000291 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 522306000292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 522306000293 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 522306000294 active site 522306000295 metal binding site [ion binding]; metal-binding site 522306000296 interdomain interaction site; other site 522306000297 Copper resistance protein K; Region: CopK; pfam11525 522306000298 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522306000299 Zn2+ binding site [ion binding]; other site 522306000300 Mg2+ binding site [ion binding]; other site 522306000301 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 522306000302 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 522306000303 Integrase core domain; Region: rve; cl01316 522306000304 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 522306000305 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 522306000306 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306000307 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 522306000308 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 522306000309 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 522306000310 Protein of unknown function, DUF; Region: DUF411; cl01142 522306000311 Helix-turn-helix domains; Region: HTH; cl00088 522306000312 Integrase core domain; Region: rve; cl01316 522306000313 Integrase core domain; Region: rve_3; cl15866 522306000314 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 522306000315 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 522306000316 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306000317 Walker A motif; other site 522306000318 ATP binding site [chemical binding]; other site 522306000319 Walker B motif; other site 522306000320 arginine finger; other site 522306000321 Transposase domain (DUF772); Region: DUF772; cl15789 522306000322 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306000323 Transposase domain (DUF772); Region: DUF772; cl15789 522306000324 Copper resistance protein K; Region: CopK; pfam11525 522306000325 Integrase core domain; Region: rve; cl01316 522306000326 Transposase domain (DUF772); Region: DUF772; cl15789 522306000327 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306000328 Transposase domain (DUF772); Region: DUF772; cl15789 522306000329 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 522306000330 dimer interface [polypeptide binding]; other site 522306000331 conserved gate region; other site 522306000332 putative PBP binding loops; other site 522306000333 ABC-ATPase subunit interface; other site 522306000334 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 522306000335 dimer interface [polypeptide binding]; other site 522306000336 conserved gate region; other site 522306000337 putative PBP binding loops; other site 522306000338 ABC-ATPase subunit interface; other site 522306000339 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306000340 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 522306000341 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 522306000342 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306000343 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 522306000344 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522306000345 Protein of unknown function, DUF; Region: DUF411; cl01142 522306000346 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 522306000347 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 522306000348 Cytochrome c; Region: Cytochrom_C; cl11414 522306000349 Cytochrome c; Region: Cytochrom_C; cl11414 522306000350 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 522306000351 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522306000352 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306000353 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306000354 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 522306000355 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 522306000356 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 522306000357 DNA binding residues [nucleotide binding] 522306000358 dimer interface [polypeptide binding]; other site 522306000359 putative metal binding site [ion binding]; other site 522306000360 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 522306000361 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 522306000362 Int/Topo IB signature motif; other site 522306000363 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 522306000364 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 522306000365 DNA binding site [nucleotide binding] 522306000366 Int/Topo IB signature motif; other site 522306000367 active site 522306000368 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 522306000369 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 522306000370 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 522306000371 DNA binding site [nucleotide binding] 522306000372 Int/Topo IB signature motif; other site 522306000373 active site 522306000374 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 522306000375 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522306000376 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306000377 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306000378 Phospholipid methyltransferase; Region: PEMT; cl00763 522306000379 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 522306000380 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 522306000381 Protein of unknown function, DUF; Region: DUF411; cl01142 522306000382 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 522306000383 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306000384 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306000385 Outer membrane efflux protein; Region: OEP; pfam02321 522306000386 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 522306000387 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 522306000388 active site 522306000389 phosphorylation site [posttranslational modification] 522306000390 intermolecular recognition site; other site 522306000391 dimerization interface [polypeptide binding]; other site 522306000392 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 522306000393 DNA binding site [nucleotide binding] 522306000394 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 522306000395 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306000396 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 522306000397 dimer interface [polypeptide binding]; other site 522306000398 phosphorylation site [posttranslational modification] 522306000399 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 522306000400 ATP binding site [chemical binding]; other site 522306000401 Mg2+ binding site [ion binding]; other site 522306000402 G-X-G motif; other site 522306000403 Copper resistance protein K; Region: CopK; pfam11525 522306000404 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 522306000405 IHF dimer interface [polypeptide binding]; other site 522306000406 IHF - DNA interface [nucleotide binding]; other site 522306000407 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 522306000408 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 522306000409 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 522306000410 multiple promoter invertase; Provisional; Region: mpi; PRK13413 522306000411 catalytic residues [active] 522306000412 catalytic nucleophile [active] 522306000413 Presynaptic Site I dimer interface [polypeptide binding]; other site 522306000414 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 522306000415 Synaptic Flat tetramer interface [polypeptide binding]; other site 522306000416 Synaptic Site I dimer interface [polypeptide binding]; other site 522306000417 DNA binding site [nucleotide binding] 522306000418 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 522306000419 DNA-binding interface [nucleotide binding]; DNA binding site 522306000420 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 522306000421 active site 522306000422 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 522306000423 lipoprotein signal peptidase; Provisional; Region: PRK14787 522306000424 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522306000425 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 522306000426 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306000427 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306000428 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 522306000429 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 522306000430 DNA binding residues [nucleotide binding] 522306000431 dimer interface [polypeptide binding]; other site 522306000432 putative metal binding site [ion binding]; other site 522306000433 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 522306000434 TrbM; Region: TrbM; cl06455 522306000435 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 522306000436 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 522306000437 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 522306000438 conjugal transfer protein TrbH; Provisional; Region: PRK13883 522306000439 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 522306000440 VirB8 protein; Region: VirB8; cl01500 522306000441 conjugal transfer protein TrbE; Provisional; Region: PRK13891 522306000442 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 522306000443 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306000444 Walker B; other site 522306000445 D-loop; other site 522306000446 H-loop/switch region; other site 522306000447 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 522306000448 TrbC/VIRB2 family; Region: TrbC; cl01583 522306000449 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 522306000450 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 522306000451 ATP binding site [chemical binding]; other site 522306000452 Walker A motif; other site 522306000453 hexamer interface [polypeptide binding]; other site 522306000454 Walker B motif; other site 522306000455 conjugal transfer protein TrbA; Provisional; Region: PRK13890 522306000456 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 522306000457 non-specific DNA binding site [nucleotide binding]; other site 522306000458 salt bridge; other site 522306000459 sequence-specific DNA binding site [nucleotide binding]; other site 522306000460 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 522306000461 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 522306000462 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 522306000463 Transposase; Region: DEDD_Tnp_IS110; pfam01548 522306000464 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 522306000465 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 522306000466 DnaA N-terminal domain; Region: DnaA_N; pfam11638 522306000467 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 522306000468 Walker A motif; other site 522306000469 ATP binding site [chemical binding]; other site 522306000470 Walker B motif; other site 522306000471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306000472 arginine finger; other site 522306000473 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 522306000474 DnaA box-binding interface [nucleotide binding]; other site 522306000475 DNA polymerase III subunit beta; Validated; Region: PRK05643 522306000476 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 522306000477 putative DNA binding surface [nucleotide binding]; other site 522306000478 dimer interface [polypeptide binding]; other site 522306000479 beta-clamp/clamp loader binding surface; other site 522306000480 beta-clamp/translesion DNA polymerase binding surface; other site 522306000481 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 522306000482 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 522306000483 ATP binding site [chemical binding]; other site 522306000484 Mg2+ binding site [ion binding]; other site 522306000485 G-X-G motif; other site 522306000486 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 522306000487 anchoring element; other site 522306000488 dimer interface [polypeptide binding]; other site 522306000489 ATP binding site [chemical binding]; other site 522306000490 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 522306000491 active site 522306000492 putative metal-binding site [ion binding]; other site 522306000493 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 522306000494 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 522306000495 active site 522306000496 dimer interface [polypeptide binding]; other site 522306000497 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306000498 active site 522306000499 ATP binding site [chemical binding]; other site 522306000500 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 522306000501 Ligand Binding Site [chemical binding]; other site 522306000502 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 522306000503 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 522306000504 ATP binding site [chemical binding]; other site 522306000505 Mg2+ binding site [ion binding]; other site 522306000506 G-X-G motif; other site 522306000507 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 522306000508 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 522306000509 active site 522306000510 phosphorylation site [posttranslational modification] 522306000511 intermolecular recognition site; other site 522306000512 dimerization interface [polypeptide binding]; other site 522306000513 Helix-turn-helix domains; Region: HTH; cl00088 522306000514 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 522306000515 RNA binding surface [nucleotide binding]; other site 522306000516 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 522306000517 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 522306000518 Domain of unknown function DUF21; Region: DUF21; pfam01595 522306000519 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 522306000520 Transporter associated domain; Region: CorC_HlyC; cl08393 522306000521 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 522306000522 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 522306000523 active site 522306000524 catalytic residue [active] 522306000525 dimer interface [polypeptide binding]; other site 522306000526 Integral membrane protein TerC family; Region: TerC; cl10468 522306000527 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 522306000528 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522306000529 catalytic residue [active] 522306000530 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 522306000531 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 522306000532 putative acyl-acceptor binding pocket; other site 522306000533 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 522306000534 elongation factor G; Reviewed; Region: PRK12740 522306000535 G1 box; other site 522306000536 putative GEF interaction site [polypeptide binding]; other site 522306000537 GTP/Mg2+ binding site [chemical binding]; other site 522306000538 Switch I region; other site 522306000539 G2 box; other site 522306000540 G3 box; other site 522306000541 Switch II region; other site 522306000542 G4 box; other site 522306000543 G5 box; other site 522306000544 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 522306000545 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 522306000546 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 522306000547 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 522306000548 Malic enzyme, N-terminal domain; Region: malic; pfam00390 522306000549 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 522306000550 putative NAD(P) binding site [chemical binding]; other site 522306000551 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 522306000552 TolB amino-terminal domain; Region: TolB_N; cl00639 522306000553 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 522306000554 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 522306000555 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306000556 ligand binding site [chemical binding]; other site 522306000557 FecR protein; Region: FecR; pfam04773 522306000558 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 522306000559 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306000560 ligand binding site [chemical binding]; other site 522306000561 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 522306000562 structural tetrad; other site 522306000563 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 522306000564 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306000565 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 522306000566 ThiC-associated domain; Region: ThiC-associated; pfam13667 522306000567 ThiC family; Region: ThiC; cl08031 522306000568 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306000569 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 522306000570 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 522306000571 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 522306000572 active site 522306000573 metal binding site [ion binding]; metal-binding site 522306000574 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 522306000575 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 522306000576 active site 522306000577 uracil binding [chemical binding]; other site 522306000578 Transcriptional regulator [Transcription]; Region: LysR; COG0583 522306000579 Helix-turn-helix domains; Region: HTH; cl00088 522306000580 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 522306000581 dimerization interface [polypeptide binding]; other site 522306000582 DNA topoisomerase III; Validated; Region: PRK08173 522306000583 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 522306000584 active site 522306000585 putative interdomain interaction site [polypeptide binding]; other site 522306000586 putative metal-binding site [ion binding]; other site 522306000587 putative nucleotide binding site [chemical binding]; other site 522306000588 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 522306000589 domain I; other site 522306000590 DNA binding groove [nucleotide binding] 522306000591 phosphate binding site [ion binding]; other site 522306000592 domain II; other site 522306000593 domain III; other site 522306000594 nucleotide binding site [chemical binding]; other site 522306000595 catalytic site [active] 522306000596 domain IV; other site 522306000597 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 522306000598 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 522306000599 Protein of unknown function (DUF494); Region: DUF494; cl01103 522306000600 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 522306000601 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 522306000602 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 522306000603 putative peptidoglycan binding site; other site 522306000604 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 522306000605 active site 522306000606 catalytic residues [active] 522306000607 metal binding site [ion binding]; metal-binding site 522306000608 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 522306000609 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 522306000610 putative active site [active] 522306000611 substrate binding site [chemical binding]; other site 522306000612 putative cosubstrate binding site; other site 522306000613 catalytic site [active] 522306000614 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 522306000615 substrate binding site [chemical binding]; other site 522306000616 Peptidase family M48; Region: Peptidase_M48; cl12018 522306000617 S1/P1 Nuclease; Region: S1-P1_nuclease; pfam02265 522306000618 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 522306000619 Cation efflux family; Region: Cation_efflux; cl00316 522306000620 16S rRNA methyltransferase B; Provisional; Region: PRK10901 522306000621 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 522306000622 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306000623 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 522306000624 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 522306000625 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 522306000626 dimerization interface [polypeptide binding]; other site 522306000627 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 522306000628 dimer interface [polypeptide binding]; other site 522306000629 phosphorylation site [posttranslational modification] 522306000630 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 522306000631 ATP binding site [chemical binding]; other site 522306000632 Mg2+ binding site [ion binding]; other site 522306000633 G-X-G motif; other site 522306000634 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522306000635 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 522306000636 active site 522306000637 phosphorylation site [posttranslational modification] 522306000638 intermolecular recognition site; other site 522306000639 dimerization interface [polypeptide binding]; other site 522306000640 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 522306000641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306000642 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 522306000643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306000644 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 522306000645 Cation transport protein; Region: TrkH; cl10514 522306000646 Cation transport protein; Region: TrkH; cl10514 522306000647 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 522306000648 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 522306000649 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 522306000650 FOG: CBS domain [General function prediction only]; Region: COG0517 522306000651 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_17; cd04630 522306000652 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 522306000653 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 522306000654 substrate binding site [chemical binding]; other site 522306000655 active site 522306000656 primosome assembly protein PriA; Validated; Region: PRK05580 522306000657 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 522306000658 ATP binding site [chemical binding]; other site 522306000659 putative Mg++ binding site [ion binding]; other site 522306000660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306000661 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 522306000662 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 522306000663 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 522306000664 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522306000665 fructokinase; Reviewed; Region: PRK09557 522306000666 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 522306000667 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 522306000668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306000669 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 522306000670 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 522306000671 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 522306000672 putative trimer interface [polypeptide binding]; other site 522306000673 putative active site [active] 522306000674 putative substrate binding site [chemical binding]; other site 522306000675 putative CoA binding site [chemical binding]; other site 522306000676 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 522306000677 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306000678 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 522306000679 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 522306000680 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 522306000681 inhibitor-cofactor binding pocket; inhibition site 522306000682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306000683 catalytic residue [active] 522306000684 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 522306000685 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 522306000686 Ligand binding site; other site 522306000687 DXD motif; other site 522306000688 Putative Catalytic site; other site 522306000689 MatE; Region: MatE; cl10513 522306000690 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 522306000691 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306000692 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cd00352 522306000693 active site 522306000694 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 522306000695 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 522306000696 Ligand Binding Site [chemical binding]; other site 522306000697 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 522306000698 AAA domain; Region: AAA_22; pfam13401 522306000699 Walker A motif; other site 522306000700 ATP binding site [chemical binding]; other site 522306000701 Walker B motif; other site 522306000702 arginine finger; other site 522306000703 Winged helix-turn helix; Region: HTH_29; pfam13551 522306000704 Helix-turn-helix domains; Region: HTH; cl00088 522306000705 Helix-turn-helix domains; Region: HTH; cl00088 522306000706 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 522306000707 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 522306000708 catalytic residues [active] 522306000709 catalytic nucleophile [active] 522306000710 Recombinase; Region: Recombinase; pfam07508 522306000711 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 522306000712 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 522306000713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306000714 Helix-turn-helix domains; Region: HTH; cl00088 522306000715 Integrase core domain; Region: rve; cl01316 522306000716 transposase/IS protein; Provisional; Region: PRK09183 522306000717 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 522306000718 Walker A motif; other site 522306000719 ATP binding site [chemical binding]; other site 522306000720 Walker B motif; other site 522306000721 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 522306000722 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522306000723 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 522306000724 Walker A motif; other site 522306000725 ATP binding site [chemical binding]; other site 522306000726 Walker B motif; other site 522306000727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306000728 Integrase core domain; Region: rve; cl01316 522306000729 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 522306000730 Integrase core domain; Region: rve; cl01316 522306000731 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 522306000732 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 522306000733 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306000734 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 522306000735 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306000736 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 522306000737 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306000738 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522306000739 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 522306000740 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_III; cd01996 522306000741 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 522306000742 Ligand Binding Site [chemical binding]; other site 522306000743 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 522306000744 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 522306000745 putative active site [active] 522306000746 oxyanion strand; other site 522306000747 catalytic triad [active] 522306000748 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 522306000749 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 522306000750 substrate binding site [chemical binding]; other site 522306000751 glutamase interaction surface [polypeptide binding]; other site 522306000752 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 522306000753 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 522306000754 NAD(P) binding site [chemical binding]; other site 522306000755 homodimer interface [polypeptide binding]; other site 522306000756 substrate binding site [chemical binding]; other site 522306000757 active site 522306000758 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 522306000759 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 522306000760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306000761 NAD(P) binding site [chemical binding]; other site 522306000762 active site 522306000763 Cupin domain; Region: Cupin_2; cl09118 522306000764 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 522306000765 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 522306000766 active site 522306000767 homodimer interface [polypeptide binding]; other site 522306000768 putative glycosyl transferase; Provisional; Region: PRK10307 522306000769 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 522306000770 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 522306000771 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 522306000772 putative NAD(P) binding site [chemical binding]; other site 522306000773 active site 522306000774 putative substrate binding site [chemical binding]; other site 522306000775 Bacterial sugar transferase; Region: Bac_transf; cl00939 522306000776 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 522306000777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306000778 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 522306000779 NAD(P) binding site [chemical binding]; other site 522306000780 homodimer interface [polypeptide binding]; other site 522306000781 substrate binding site [chemical binding]; other site 522306000782 active site 522306000783 HDOD domain; Region: HDOD; pfam08668 522306000784 Response regulator receiver domain; Region: Response_reg; pfam00072 522306000785 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 522306000786 active site 522306000787 phosphorylation site [posttranslational modification] 522306000788 intermolecular recognition site; other site 522306000789 dimerization interface [polypeptide binding]; other site 522306000790 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306000791 metal binding site [ion binding]; metal-binding site 522306000792 active site 522306000793 I-site; other site 522306000794 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 522306000795 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 522306000796 generic binding surface II; other site 522306000797 generic binding surface I; other site 522306000798 superoxide dismutase; Provisional; Region: PRK10543 522306000799 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 522306000800 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 522306000801 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 522306000802 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 522306000803 dimer interface [polypeptide binding]; other site 522306000804 ssDNA binding site [nucleotide binding]; other site 522306000805 tetramer (dimer of dimers) interface [polypeptide binding]; other site 522306000806 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 522306000807 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522306000808 putative substrate translocation pore; other site 522306000809 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 522306000810 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 522306000811 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 522306000812 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 522306000813 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 522306000814 IHF dimer interface [polypeptide binding]; other site 522306000815 IHF - DNA interface [nucleotide binding]; other site 522306000816 RIP metalloprotease RseP; Region: TIGR00054 522306000817 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306000818 hypothetical protein; Provisional; Region: PRK13560 522306000819 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306000820 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306000821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306000822 metal binding site [ion binding]; metal-binding site 522306000823 active site 522306000824 I-site; other site 522306000825 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 522306000826 DNA binding site [nucleotide binding] 522306000827 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306000828 Predicted ATPase [General function prediction only]; Region: COG3899 522306000829 TOMM system kinase/cyclase multidomain protein; Region: TOMM_kin_cyc; TIGR03903 522306000830 heterogeneous nuclear ribonucleoprotein R, Q family; Region: hnRNP-R-Q; TIGR01648 522306000831 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 522306000832 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306000833 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306000834 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306000835 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 522306000836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306000837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306000838 Transposase [DNA replication, recombination, and repair]; Region: COG5421 522306000839 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 522306000840 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 522306000841 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 522306000842 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 522306000843 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 522306000844 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 522306000845 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 522306000846 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 522306000847 NAD binding site [chemical binding]; other site 522306000848 homotetramer interface [polypeptide binding]; other site 522306000849 homodimer interface [polypeptide binding]; other site 522306000850 substrate binding site [chemical binding]; other site 522306000851 active site 522306000852 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 522306000853 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 522306000854 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306000855 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 522306000856 dimer interface [polypeptide binding]; other site 522306000857 phosphorylation site [posttranslational modification] 522306000858 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 522306000859 ATP binding site [chemical binding]; other site 522306000860 Mg2+ binding site [ion binding]; other site 522306000861 G-X-G motif; other site 522306000862 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 522306000863 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 522306000864 active site 522306000865 phosphorylation site [posttranslational modification] 522306000866 intermolecular recognition site; other site 522306000867 dimerization interface [polypeptide binding]; other site 522306000868 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 522306000869 DNA binding site [nucleotide binding] 522306000870 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 522306000871 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 522306000872 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306000873 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 522306000874 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 522306000875 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 522306000876 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 522306000877 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 522306000878 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 522306000879 putative GSH binding site (G-site) [chemical binding]; other site 522306000880 putative C-terminal domain interface [polypeptide binding]; other site 522306000881 putative dimer interface [polypeptide binding]; other site 522306000882 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 522306000883 dimer interface [polypeptide binding]; other site 522306000884 N-terminal domain interface [polypeptide binding]; other site 522306000885 putative substrate binding pocket (H-site) [chemical binding]; other site 522306000886 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306000887 PAS domain S-box; Region: sensory_box; TIGR00229 522306000888 hypothetical protein; Provisional; Region: PRK13560 522306000889 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 522306000890 putative active site [active] 522306000891 heme pocket [chemical binding]; other site 522306000892 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 522306000893 putative active site [active] 522306000894 heme pocket [chemical binding]; other site 522306000895 PAS domain S-box; Region: sensory_box; TIGR00229 522306000896 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 522306000897 putative active site [active] 522306000898 heme pocket [chemical binding]; other site 522306000899 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 522306000900 dimer interface [polypeptide binding]; other site 522306000901 phosphorylation site [posttranslational modification] 522306000902 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 522306000903 ATP binding site [chemical binding]; other site 522306000904 Mg2+ binding site [ion binding]; other site 522306000905 G-X-G motif; other site 522306000906 PAS fold; Region: PAS; pfam00989 522306000907 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 522306000908 putative active site [active] 522306000909 heme pocket [chemical binding]; other site 522306000910 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 522306000911 dimer interface [polypeptide binding]; other site 522306000912 phosphorylation site [posttranslational modification] 522306000913 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 522306000914 ATP binding site [chemical binding]; other site 522306000915 Mg2+ binding site [ion binding]; other site 522306000916 G-X-G motif; other site 522306000917 FCD domain; Region: FCD; cl11656 522306000918 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 522306000919 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 522306000920 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306000921 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 522306000922 Protein export membrane protein; Region: SecD_SecF; cl14618 522306000923 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 522306000924 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 522306000925 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306000926 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306000927 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306000928 Phage-related protein [Function unknown]; Region: COG4695; cl01923 522306000929 Phage-related protein [Function unknown]; Region: COG4695; cl01923 522306000930 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 522306000931 tandem repeat interface [polypeptide binding]; other site 522306000932 active site residues [active] 522306000933 oligomer interface [polypeptide binding]; other site 522306000934 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306000935 Helix-turn-helix domains; Region: HTH; cl00088 522306000936 Integrase core domain; Region: rve; cl01316 522306000937 Integrase core domain; Region: rve_3; cl15866 522306000938 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 522306000939 AAA domain; Region: AAA_22; pfam13401 522306000940 Walker A motif; other site 522306000941 ATP binding site [chemical binding]; other site 522306000942 Walker B motif; other site 522306000943 arginine finger; other site 522306000944 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306000945 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306000946 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 522306000947 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 522306000948 G1 box; other site 522306000949 GTP/Mg2+ binding site [chemical binding]; other site 522306000950 G2 box; other site 522306000951 Switch I region; other site 522306000952 G3 box; other site 522306000953 Switch II region; other site 522306000954 G4 box; other site 522306000955 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 522306000956 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306000957 active site 522306000958 substrate pocket [chemical binding]; other site 522306000959 dimer interface [polypeptide binding]; other site 522306000960 proteolytic cleavage site; other site 522306000961 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 522306000962 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306000963 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 522306000964 Magnesium ion binding site [ion binding]; other site 522306000965 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 522306000966 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306000967 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 522306000968 tartrate dehydrogenase; Provisional; Region: PRK08194 522306000969 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 522306000970 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 522306000971 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306000972 catalytic residue [active] 522306000973 Integrase core domain; Region: rve; cl01316 522306000974 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 522306000975 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 522306000976 putative homodimer interface [polypeptide binding]; other site 522306000977 putative active site [active] 522306000978 catalytic site [active] 522306000979 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 522306000980 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 522306000981 catalytic residues [active] 522306000982 catalytic nucleophile [active] 522306000983 Presynaptic Site I dimer interface [polypeptide binding]; other site 522306000984 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 522306000985 Synaptic Flat tetramer interface [polypeptide binding]; other site 522306000986 Synaptic Site I dimer interface [polypeptide binding]; other site 522306000987 DNA binding site [nucleotide binding] 522306000988 Recombinase; Region: Recombinase; pfam07508 522306000989 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 522306000990 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 522306000991 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 522306000992 Transposase [DNA replication, recombination, and repair]; Region: COG5421 522306000993 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 522306000994 Sulfatase; Region: Sulfatase; cl10460 522306000995 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 522306000996 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 522306000997 motif II; other site 522306000998 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 522306000999 putative transposase OrfB; Reviewed; Region: PHA02517 522306001000 HTH-like domain; Region: HTH_21; pfam13276 522306001001 Integrase core domain; Region: rve; cl01316 522306001002 Integrase core domain; Region: rve_3; cl15866 522306001003 Helix-turn-helix domains; Region: HTH; cl00088 522306001004 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 522306001005 DNA binding site [nucleotide binding] 522306001006 active site 522306001007 Int/Topo IB signature motif; other site 522306001008 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 522306001009 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 522306001010 non-specific DNA binding site [nucleotide binding]; other site 522306001011 salt bridge; other site 522306001012 sequence-specific DNA binding site [nucleotide binding]; other site 522306001013 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306001014 metal binding site [ion binding]; metal-binding site 522306001015 active site 522306001016 I-site; other site 522306001017 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 522306001018 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 522306001019 putative ATP binding site [chemical binding]; other site 522306001020 putative substrate interface [chemical binding]; other site 522306001021 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 522306001022 putative binding surface; other site 522306001023 active site 522306001024 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 522306001025 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306001026 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 522306001027 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 522306001028 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 522306001029 RNA binding surface [nucleotide binding]; other site 522306001030 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 522306001031 active site 522306001032 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 522306001033 FAD binding domain; Region: FAD_binding_4; pfam01565 522306001034 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 522306001035 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 522306001036 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 522306001037 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 522306001038 substrate binding pocket [chemical binding]; other site 522306001039 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 522306001040 B12 binding site [chemical binding]; other site 522306001041 cobalt ligand [ion binding]; other site 522306001042 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 522306001043 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306001044 metal binding site [ion binding]; metal-binding site 522306001045 active site 522306001046 I-site; other site 522306001047 MarC family integral membrane protein; Region: MarC; cl00919 522306001048 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 522306001049 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 522306001050 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 522306001051 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 522306001052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 522306001053 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306001054 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 522306001055 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 522306001056 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 522306001057 dimer interface [polypeptide binding]; other site 522306001058 conserved gate region; other site 522306001059 putative PBP binding loops; other site 522306001060 ABC-ATPase subunit interface; other site 522306001061 sulfate transport protein; Provisional; Region: cysT; CHL00187 522306001062 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 522306001063 dimer interface [polypeptide binding]; other site 522306001064 conserved gate region; other site 522306001065 putative PBP binding loops; other site 522306001066 ABC-ATPase subunit interface; other site 522306001067 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 522306001068 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 522306001069 Walker A/P-loop; other site 522306001070 ATP binding site [chemical binding]; other site 522306001071 Q-loop/lid; other site 522306001072 ABC transporter signature motif; other site 522306001073 Walker B; other site 522306001074 D-loop; other site 522306001075 H-loop/switch region; other site 522306001076 TOBE-like domain; Region: TOBE_3; pfam12857 522306001077 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 522306001078 Helix-turn-helix domains; Region: HTH; cl00088 522306001079 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 522306001080 substrate binding site [chemical binding]; other site 522306001081 dimerization interface [polypeptide binding]; other site 522306001082 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 522306001083 YokU-like protein; Region: YokU; cl15819 522306001084 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 522306001085 salt bridge; other site 522306001086 non-specific DNA binding site [nucleotide binding]; other site 522306001087 sequence-specific DNA binding site [nucleotide binding]; other site 522306001088 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 522306001089 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 522306001090 Protein export membrane protein; Region: SecD_SecF; cl14618 522306001091 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306001092 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306001093 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306001094 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 522306001095 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 522306001096 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 522306001097 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306001098 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 522306001099 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 522306001100 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 522306001101 6-phosphofructokinase, eukaryotic type; Region: 6PF1K_euk; TIGR02478 522306001102 active site 522306001103 ADP/pyrophosphate binding site [chemical binding]; other site 522306001104 dimerization interface [polypeptide binding]; other site 522306001105 allosteric effector site; other site 522306001106 fructose-1,6-bisphosphate binding site; other site 522306001107 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 522306001108 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 522306001109 active site 522306001110 substrate binding site [chemical binding]; other site 522306001111 catalytic site [active] 522306001112 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 522306001113 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 522306001114 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_5; cd03408 522306001115 Short C-terminal domain; Region: SHOCT; cl01373 522306001116 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 522306001117 Type III pantothenate kinase; Region: Pan_kinase; cl09130 522306001118 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 522306001119 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 522306001120 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 522306001121 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 522306001122 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 522306001123 active site 522306001124 phosphorylation site [posttranslational modification] 522306001125 intermolecular recognition site; other site 522306001126 dimerization interface [polypeptide binding]; other site 522306001127 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 522306001128 Walker A motif; other site 522306001129 ATP binding site [chemical binding]; other site 522306001130 Walker B motif; other site 522306001131 arginine finger; other site 522306001132 Helix-turn-helix domains; Region: HTH; cl00088 522306001133 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 522306001134 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 522306001135 dimer interface [polypeptide binding]; other site 522306001136 phosphorylation site [posttranslational modification] 522306001137 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 522306001138 ATP binding site [chemical binding]; other site 522306001139 Mg2+ binding site [ion binding]; other site 522306001140 G-X-G motif; other site 522306001141 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 522306001142 glutamine synthetase; Provisional; Region: glnA; PRK09469 522306001143 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 522306001144 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 522306001145 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 522306001146 active site residue [active] 522306001147 Quinolinate synthetase A protein; Region: NadA; cl00420 522306001148 mycofactocin system glycosyltransferase; Region: actino_glycTran; TIGR03965 522306001149 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 522306001150 active site 522306001151 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 522306001152 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 522306001153 dimerization interface [polypeptide binding]; other site 522306001154 domain crossover interface; other site 522306001155 redox-dependent activation switch; other site 522306001156 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 522306001157 FAD binding domain; Region: FAD_binding_4; pfam01565 522306001158 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 522306001159 glucokinase, proteobacterial type; Region: glk; TIGR00749 522306001160 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 522306001161 homodimer interface [polypeptide binding]; other site 522306001162 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 522306001163 active site pocket [active] 522306001164 glycogen branching enzyme; Provisional; Region: PRK05402 522306001165 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 522306001166 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 522306001167 active site 522306001168 catalytic site [active] 522306001169 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 522306001170 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 522306001171 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 522306001172 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 522306001173 active site 522306001174 catalytic site [active] 522306001175 hypothetical protein; Provisional; Region: PRK08999 522306001176 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 522306001177 active site 522306001178 8-oxo-dGMP binding site [chemical binding]; other site 522306001179 nudix motif; other site 522306001180 metal binding site [ion binding]; metal-binding site 522306001181 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 522306001182 active site 522306001183 thiamine phosphate binding site [chemical binding]; other site 522306001184 pyrophosphate binding site [ion binding]; other site 522306001185 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 522306001186 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 522306001187 Walker A motif; other site 522306001188 ATP binding site [chemical binding]; other site 522306001189 Walker B motif; other site 522306001190 arginine finger; other site 522306001191 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 522306001192 MltA specific insert domain; Region: MltA; cl08398 522306001193 3D domain; Region: 3D; cl01439 522306001194 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 522306001195 threonine dehydratase; Reviewed; Region: PRK09224 522306001196 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 522306001197 tetramer interface [polypeptide binding]; other site 522306001198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306001199 catalytic residue [active] 522306001200 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 522306001201 putative Ile/Val binding site [chemical binding]; other site 522306001202 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 522306001203 putative Ile/Val binding site [chemical binding]; other site 522306001204 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 522306001205 lytic murein transglycosylase; Provisional; Region: PRK11619 522306001206 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 522306001207 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522306001208 catalytic residue [active] 522306001209 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 522306001210 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 522306001211 putative NAD(P) binding site [chemical binding]; other site 522306001212 active site 522306001213 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 522306001214 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 522306001215 active site 522306001216 NTP binding site [chemical binding]; other site 522306001217 metal binding triad [ion binding]; metal-binding site 522306001218 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 522306001219 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306001220 Uncharacterized conserved protein [Function unknown]; Region: COG1565 522306001221 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 522306001222 pteridine reductase; Provisional; Region: PRK09135 522306001223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306001224 NAD(P) binding site [chemical binding]; other site 522306001225 active site 522306001226 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 522306001227 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 522306001228 Ligand Binding Site [chemical binding]; other site 522306001229 cyclase homology domain; Region: CHD; cd07302 522306001230 nucleotidyl binding site; other site 522306001231 metal binding site [ion binding]; metal-binding site 522306001232 dimer interface [polypeptide binding]; other site 522306001233 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 522306001234 phosphopeptide binding site; other site 522306001235 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 522306001236 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522306001237 active site 522306001238 biotin synthase; Region: bioB; TIGR00433 522306001239 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 522306001240 FeS/SAM binding site; other site 522306001241 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 522306001242 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 522306001243 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 522306001244 S-adenosylmethionine binding site [chemical binding]; other site 522306001245 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 522306001246 putative valine binding site [chemical binding]; other site 522306001247 dimer interface [polypeptide binding]; other site 522306001248 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 522306001249 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 522306001250 PYR/PP interface [polypeptide binding]; other site 522306001251 dimer interface [polypeptide binding]; other site 522306001252 TPP binding site [chemical binding]; other site 522306001253 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 522306001254 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 522306001255 TPP-binding site [chemical binding]; other site 522306001256 dimer interface [polypeptide binding]; other site 522306001257 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 522306001258 dimer interface [polypeptide binding]; other site 522306001259 catalytic triad [active] 522306001260 peroxidatic and resolving cysteines [active] 522306001261 Transcriptional regulator [Transcription]; Region: IclR; COG1414 522306001262 Helix-turn-helix domains; Region: HTH; cl00088 522306001263 Bacterial transcriptional regulator; Region: IclR; pfam01614 522306001264 Bacitracin resistance protein BacA; Region: BacA; cl00858 522306001265 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 522306001266 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 522306001267 RNB domain; Region: RNB; pfam00773 522306001268 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 522306001269 Gram-negative bacterial tonB protein; Region: TonB; cl10048 522306001270 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 522306001271 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 522306001272 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 522306001273 shikimate binding site; other site 522306001274 NAD(P) binding site [chemical binding]; other site 522306001275 Transglycosylase; Region: Transgly; cl07896 522306001276 oxaloacetate decarboxylase; Provisional; Region: PRK14040 522306001277 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 522306001278 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 522306001279 ATP binding site [chemical binding]; other site 522306001280 Mg++ binding site [ion binding]; other site 522306001281 motif III; other site 522306001282 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 522306001283 nucleotide binding region [chemical binding]; other site 522306001284 ATP-binding site [chemical binding]; other site 522306001285 UTRA domain; Region: UTRA; cl01230 522306001286 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 522306001287 Cytochrome c; Region: Cytochrom_C; cl11414 522306001288 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 522306001289 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 522306001290 structural tetrad; other site 522306001291 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 522306001292 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 522306001293 FeS/SAM binding site; other site 522306001294 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 522306001295 mechanosensitive channel MscS; Provisional; Region: PRK10334 522306001296 Mechanosensitive ion channel; Region: MS_channel; pfam00924 522306001297 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 522306001298 putative active site [active] 522306001299 catalytic site [active] 522306001300 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 522306001301 PLD-like domain; Region: PLDc_2; pfam13091 522306001302 putative active site [active] 522306001303 catalytic site [active] 522306001304 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522306001305 active site 522306001306 HIGH motif; other site 522306001307 nucleotide binding site [chemical binding]; other site 522306001308 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522306001309 KMSKS motif; other site 522306001310 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 522306001311 feedback inhibition sensing region; other site 522306001312 homohexameric interface [polypeptide binding]; other site 522306001313 nucleotide binding site [chemical binding]; other site 522306001314 N-acetyl-L-glutamate binding site [chemical binding]; other site 522306001315 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 522306001316 motif II; other site 522306001317 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 522306001318 PAS domain; Region: PAS_9; pfam13426 522306001319 putative active site [active] 522306001320 heme pocket [chemical binding]; other site 522306001321 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306001322 PAS domain; Region: PAS_9; pfam13426 522306001323 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306001324 PAS domain; Region: PAS_9; pfam13426 522306001325 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306001326 PAS domain; Region: PAS_9; pfam13426 522306001327 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 522306001328 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306001329 PAS domain; Region: PAS_9; pfam13426 522306001330 PAS fold; Region: PAS_4; pfam08448 522306001331 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 522306001332 putative active site [active] 522306001333 heme pocket [chemical binding]; other site 522306001334 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 522306001335 PAS domain; Region: PAS_9; pfam13426 522306001336 putative active site [active] 522306001337 heme pocket [chemical binding]; other site 522306001338 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306001339 metal binding site [ion binding]; metal-binding site 522306001340 active site 522306001341 I-site; other site 522306001342 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 522306001343 OpgC protein; Region: OpgC_C; cl00792 522306001344 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 522306001345 dimer interface [polypeptide binding]; other site 522306001346 active site 522306001347 aspartate-rich active site metal binding site; other site 522306001348 allosteric magnesium binding site [ion binding]; other site 522306001349 Schiff base residues; other site 522306001350 Predicted GTPase [General function prediction only]; Region: COG0218 522306001351 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 522306001352 G1 box; other site 522306001353 GTP/Mg2+ binding site [chemical binding]; other site 522306001354 Switch I region; other site 522306001355 G2 box; other site 522306001356 G3 box; other site 522306001357 Switch II region; other site 522306001358 G4 box; other site 522306001359 G5 box; other site 522306001360 Cytochrome c; Region: Cytochrom_C; cl11414 522306001361 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 522306001362 Cytochrome c; Region: Cytochrom_C; cl11414 522306001363 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 522306001364 FOG: CBS domain [General function prediction only]; Region: COG0517 522306001365 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 522306001366 catalytic core [active] 522306001367 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 522306001368 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 522306001369 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 522306001370 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 522306001371 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 522306001372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306001373 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306001374 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 522306001375 thiS-thiF/thiG interaction site; other site 522306001376 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14969 522306001377 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 522306001378 Walker A motif; other site 522306001379 ATP binding site [chemical binding]; other site 522306001380 Walker B motif; other site 522306001381 arginine finger; other site 522306001382 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 522306001383 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 522306001384 recombination protein RecR; Reviewed; Region: recR; PRK00076 522306001385 RecR protein; Region: RecR; pfam02132 522306001386 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 522306001387 putative active site [active] 522306001388 putative metal-binding site [ion binding]; other site 522306001389 tetramer interface [polypeptide binding]; other site 522306001390 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 522306001391 [2Fe-2S] cluster binding site [ion binding]; other site 522306001392 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 522306001393 Qi binding site; other site 522306001394 intrachain domain interface; other site 522306001395 interchain domain interface [polypeptide binding]; other site 522306001396 cytochrome b; Provisional; Region: CYTB; MTH00156 522306001397 heme bH binding site [chemical binding]; other site 522306001398 heme bL binding site [chemical binding]; other site 522306001399 Qo binding site; other site 522306001400 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 522306001401 interchain domain interface [polypeptide binding]; other site 522306001402 intrachain domain interface; other site 522306001403 Qi binding site; other site 522306001404 Qo binding site; other site 522306001405 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 522306001406 stringent starvation protein A; Provisional; Region: sspA; PRK09481 522306001407 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 522306001408 C-terminal domain interface [polypeptide binding]; other site 522306001409 putative GSH binding site (G-site) [chemical binding]; other site 522306001410 dimer interface [polypeptide binding]; other site 522306001411 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 522306001412 dimer interface [polypeptide binding]; other site 522306001413 N-terminal domain interface [polypeptide binding]; other site 522306001414 Stringent starvation protein B; Region: SspB; cl01120 522306001415 SprA-related family; Region: SprA-related; pfam12118 522306001416 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 522306001417 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 522306001418 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 522306001419 FAD binding domain; Region: FAD_binding_4; pfam01565 522306001420 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 522306001421 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 522306001422 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 522306001423 Cysteine-rich domain; Region: CCG; pfam02754 522306001424 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 522306001425 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 522306001426 Domain of unknown function (DUF802); Region: DUF802; pfam05650 522306001427 hypothetical protein; Provisional; Region: PRK09040 522306001428 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306001429 ligand binding site [chemical binding]; other site 522306001430 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 522306001431 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 522306001432 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306001433 Family description; Region: UvrD_C_2; cl15862 522306001434 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 522306001435 nucleotide binding site/active site [active] 522306001436 HIT family signature motif; other site 522306001437 catalytic residue [active] 522306001438 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 522306001439 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 522306001440 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522306001441 DNA binding residues [nucleotide binding] 522306001442 dimerization interface [polypeptide binding]; other site 522306001443 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 522306001444 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 522306001445 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 522306001446 FeS/SAM binding site; other site 522306001447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306001448 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 522306001449 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_5; cd06153 522306001450 homotrimer interaction site [polypeptide binding]; other site 522306001451 putative active site [active] 522306001452 MltA-interacting protein MipA; Region: MipA; cl01504 522306001453 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 522306001454 putative acyl-acceptor binding pocket; other site 522306001455 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 522306001456 Ligand binding site; other site 522306001457 Putative Catalytic site; other site 522306001458 DXD motif; other site 522306001459 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 522306001460 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 522306001461 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 522306001462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306001463 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 522306001464 Divergent AAA domain; Region: AAA_4; pfam04326 522306001465 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 522306001466 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522306001467 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522306001468 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306001469 AAA domain; Region: AAA_33; pfam13671 522306001470 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306001471 Integrase core domain; Region: rve; cl01316 522306001472 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522306001473 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 522306001474 Walker A motif; other site 522306001475 ATP binding site [chemical binding]; other site 522306001476 Walker B motif; other site 522306001477 Uncharacterized conserved protein [Function unknown]; Region: COG5361 522306001478 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 522306001479 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 522306001480 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 522306001481 Transposase domain (DUF772); Region: DUF772; cl15789 522306001482 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306001483 Transposase domain (DUF772); Region: DUF772; cl15789 522306001484 HEAT repeats; Region: HEAT_2; pfam13646 522306001485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306001486 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 522306001487 Family description; Region: UvrD_C_2; cl15862 522306001488 Fic/DOC family; Region: Fic; cl00960 522306001489 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 522306001490 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 522306001491 active site 522306001492 substrate binding site [chemical binding]; other site 522306001493 catalytic site [active] 522306001494 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 522306001495 ATP binding site [chemical binding]; other site 522306001496 putative Mg++ binding site [ion binding]; other site 522306001497 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 522306001498 nucleotide binding region [chemical binding]; other site 522306001499 ATP-binding site [chemical binding]; other site 522306001500 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 522306001501 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306001502 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 522306001503 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 522306001504 Family description; Region: UvrD_C_2; cl15862 522306001505 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 522306001506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306001507 NAD(P) binding site [chemical binding]; other site 522306001508 active site 522306001509 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 522306001510 putative active site 1 [active] 522306001511 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 522306001512 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 522306001513 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 522306001514 dimer interface [polypeptide binding]; other site 522306001515 active site 522306001516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306001517 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 522306001518 NodB motif; other site 522306001519 active site 522306001520 catalytic site [active] 522306001521 metal binding site [ion binding]; metal-binding site 522306001522 Predicted exporter [General function prediction only]; Region: COG4258 522306001523 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 522306001524 putative acyl-acceptor binding pocket; other site 522306001525 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 522306001526 active site 2 [active] 522306001527 dimer interface [polypeptide binding]; other site 522306001528 active site 1 [active] 522306001529 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 522306001530 AMP-binding enzyme; Region: AMP-binding; cl15778 522306001531 Predicted membrane protein [Function unknown]; Region: COG4648 522306001532 Phosphopantetheine attachment site; Region: PP-binding; cl09936 522306001533 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 522306001534 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 522306001535 dimer interface [polypeptide binding]; other site 522306001536 active site 522306001537 Phosphopantetheine attachment site; Region: PP-binding; cl09936 522306001538 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 522306001539 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 522306001540 substrate binding site [chemical binding]; other site 522306001541 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 522306001542 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 522306001543 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306001544 ligand binding site [chemical binding]; other site 522306001545 adenylate kinase; Reviewed; Region: adk; PRK00279 522306001546 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 522306001547 AMP-binding site [chemical binding]; other site 522306001548 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 522306001549 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 522306001550 Ligand binding site; other site 522306001551 oligomer interface; other site 522306001552 Trm112p-like protein; Region: Trm112p; cl01066 522306001553 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 522306001554 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 522306001555 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 522306001556 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 522306001557 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 522306001558 HSP70 interaction site [polypeptide binding]; other site 522306001559 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 522306001560 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 522306001561 FAD binding site [chemical binding]; other site 522306001562 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 522306001563 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 522306001564 oligomerization interface [polypeptide binding]; other site 522306001565 active site 522306001566 NAD+ binding site [chemical binding]; other site 522306001567 NGN-insert domain found between N-terminal domain (D1) and C-terminal KOW domain (DIII) repeats of some N-Utilization Substance G (NusG) N-terminal (NGN); Region: NGN-insert_like; cd09910 522306001568 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 522306001569 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 522306001570 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 522306001571 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 522306001572 metal binding site [ion binding]; metal-binding site 522306001573 putative dimer interface [polypeptide binding]; other site 522306001574 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 522306001575 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 522306001576 active site 522306001577 phosphorylation site [posttranslational modification] 522306001578 intermolecular recognition site; other site 522306001579 dimerization interface [polypeptide binding]; other site 522306001580 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 522306001581 DNA binding site [nucleotide binding] 522306001582 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 522306001583 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522306001584 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306001585 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 522306001586 dimer interface [polypeptide binding]; other site 522306001587 phosphorylation site [posttranslational modification] 522306001588 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 522306001589 ATP binding site [chemical binding]; other site 522306001590 Mg2+ binding site [ion binding]; other site 522306001591 G-X-G motif; other site 522306001592 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 522306001593 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 522306001594 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 522306001595 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306001596 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 522306001597 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306001598 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306001599 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 522306001600 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 522306001601 Transposase [DNA replication, recombination, and repair]; Region: COG5433 522306001602 Transposase [DNA replication, recombination, and repair]; Region: COG5433 522306001603 Sulfatase; Region: Sulfatase; cl10460 522306001604 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 522306001605 diaminopimelate decarboxylase; Region: lysA; TIGR01048 522306001606 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 522306001607 active site 522306001608 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 522306001609 substrate binding site [chemical binding]; other site 522306001610 catalytic residues [active] 522306001611 dimer interface [polypeptide binding]; other site 522306001612 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cl00238 522306001613 putative iron binding site [ion binding]; other site 522306001614 Ferritin-like domain; Region: Ferritin; pfam00210 522306001615 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 522306001616 dinuclear metal binding motif [ion binding]; other site 522306001617 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 522306001618 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 522306001619 Cobalt transport protein component CbiN; Region: CbiN; cl00842 522306001620 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 522306001621 Ferritin-like domain; Region: Ferritin; pfam00210 522306001622 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 522306001623 dinuclear metal binding motif [ion binding]; other site 522306001624 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 522306001625 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 522306001626 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 522306001627 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 522306001628 G1 box; other site 522306001629 GTP/Mg2+ binding site [chemical binding]; other site 522306001630 Switch I region; other site 522306001631 G2 box; other site 522306001632 G3 box; other site 522306001633 Switch II region; other site 522306001634 G4 box; other site 522306001635 G5 box; other site 522306001636 Nucleoside recognition; Region: Gate; cl00486 522306001637 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 522306001638 Nucleoside recognition; Region: Gate; cl00486 522306001639 FeoA domain; Region: FeoA; cl00838 522306001640 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 522306001641 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 522306001642 Iron permease FTR1 family; Region: FTR1; cl00475 522306001643 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 522306001644 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 522306001645 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 522306001646 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 522306001647 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 522306001648 MoxR-like ATPases [General function prediction only]; Region: COG0714 522306001649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306001650 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 522306001651 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 522306001652 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 522306001653 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 522306001654 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 522306001655 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 522306001656 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 522306001657 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 522306001658 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 522306001659 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 522306001660 Walker A motif; other site 522306001661 ATP binding site [chemical binding]; other site 522306001662 Walker B motif; other site 522306001663 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 522306001664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306001665 Walker A motif; other site 522306001666 ATP binding site [chemical binding]; other site 522306001667 Walker B motif; other site 522306001668 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 522306001669 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 522306001670 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 522306001671 dimer interface [polypeptide binding]; other site 522306001672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306001673 catalytic residue [active] 522306001674 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 522306001675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306001676 NAD(P) binding site [chemical binding]; other site 522306001677 active site 522306001678 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 522306001679 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 522306001680 putative substrate translocation pore; other site 522306001681 Transcriptional regulator [Transcription]; Region: LysR; COG0583 522306001682 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 522306001683 putative substrate binding pocket [chemical binding]; other site 522306001684 putative dimerization interface [polypeptide binding]; other site 522306001685 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 522306001686 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 522306001687 catalytic residues [active] 522306001688 probable methyltransferase; Region: TIGR03438 522306001689 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 522306001690 TIGR03440 family protein; Region: unchr_TIGR03440 522306001691 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306001692 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 522306001693 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 becoming...; Region: Lipase; cl14883 522306001694 nucleophilic elbow; other site 522306001695 catalytic triad; other site 522306001696 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306001697 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306001698 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306001699 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306001700 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306001701 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306001702 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 522306001703 Cadherin repeat-like domain; Region: CA_like; cl15786 522306001704 Ca2+ binding site [ion binding]; other site 522306001705 Cadherin repeat-like domain; Region: CA_like; cl15786 522306001706 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 522306001707 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 522306001708 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 522306001709 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 522306001710 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306001711 Walker A/P-loop; other site 522306001712 ATP binding site [chemical binding]; other site 522306001713 Q-loop/lid; other site 522306001714 ABC transporter signature motif; other site 522306001715 Walker B; other site 522306001716 D-loop; other site 522306001717 H-loop/switch region; other site 522306001718 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 522306001719 GatB domain; Region: GatB_Yqey; cl11497 522306001720 DNA primase; Validated; Region: dnaG; PRK05667 522306001721 CHC2 zinc finger; Region: zf-CHC2; cl15369 522306001722 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 522306001723 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 522306001724 active site 522306001725 metal binding site [ion binding]; metal-binding site 522306001726 interdomain interaction site; other site 522306001727 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 522306001728 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 522306001729 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 522306001730 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 522306001731 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 522306001732 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 522306001733 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522306001734 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 522306001735 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 522306001736 DNA binding residues [nucleotide binding] 522306001737 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 522306001738 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 522306001739 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 522306001740 RHS Repeat; Region: RHS_repeat; cl11982 522306001741 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 522306001742 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 522306001743 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 522306001744 Baseplate J-like protein; Region: Baseplate_J; cl01294 522306001745 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 522306001746 active site 522306001747 catalytic triad [active] 522306001748 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306001749 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 522306001750 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 522306001751 dimerization interface [polypeptide binding]; other site 522306001752 PAS domain S-box; Region: sensory_box; TIGR00229 522306001753 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306001754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306001755 metal binding site [ion binding]; metal-binding site 522306001756 active site 522306001757 I-site; other site 522306001758 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 522306001759 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 522306001760 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 522306001761 substrate binding site [chemical binding]; other site 522306001762 dimer interface [polypeptide binding]; other site 522306001763 catalytic triad [active] 522306001764 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 522306001765 Phosphoglycerate kinase; Region: PGK; pfam00162 522306001766 substrate binding site [chemical binding]; other site 522306001767 hinge regions; other site 522306001768 ADP binding site [chemical binding]; other site 522306001769 catalytic site [active] 522306001770 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 522306001771 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 522306001772 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 522306001773 putative acyl-acceptor binding pocket; other site 522306001774 hypothetical protein; Provisional; Region: PRK14852 522306001775 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306001776 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 522306001777 Helix-turn-helix domains; Region: HTH; cl00088 522306001778 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 522306001779 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522306001780 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 522306001781 B12 binding site [chemical binding]; other site 522306001782 cobalt ligand [ion binding]; other site 522306001783 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 522306001784 Walker A; other site 522306001785 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 522306001786 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 522306001787 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 522306001788 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 522306001789 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 522306001790 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 522306001791 cyclase homology domain; Region: CHD; cd07302 522306001792 nucleotidyl binding site; other site 522306001793 metal binding site [ion binding]; metal-binding site 522306001794 dimer interface [polypeptide binding]; other site 522306001795 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 522306001796 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 522306001797 active site 522306001798 HIGH motif; other site 522306001799 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 522306001800 active site 522306001801 KMSKS motif; other site 522306001802 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 522306001803 non-specific DNA binding site [nucleotide binding]; other site 522306001804 salt bridge; other site 522306001805 sequence-specific DNA binding site [nucleotide binding]; other site 522306001806 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 522306001807 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 522306001808 Walker A/P-loop; other site 522306001809 ATP binding site [chemical binding]; other site 522306001810 Q-loop/lid; other site 522306001811 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 522306001812 ABC transporter signature motif; other site 522306001813 Walker B; other site 522306001814 D-loop; other site 522306001815 H-loop/switch region; other site 522306001816 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 522306001817 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 522306001818 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 522306001819 Helix-turn-helix domains; Region: HTH; cl00088 522306001820 HrcA protein C terminal domain; Region: HrcA; pfam01628 522306001821 ferrochelatase; Reviewed; Region: hemH; PRK00035 522306001822 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 522306001823 C-terminal domain interface [polypeptide binding]; other site 522306001824 active site 522306001825 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 522306001826 active site 522306001827 N-terminal domain interface [polypeptide binding]; other site 522306001828 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306001829 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 522306001830 active site 522306001831 ATP binding site [chemical binding]; other site 522306001832 substrate binding site [chemical binding]; other site 522306001833 activation loop (A-loop); other site 522306001834 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 522306001835 ligand binding site [chemical binding]; other site 522306001836 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 522306001837 dimer interface [polypeptide binding]; other site 522306001838 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 522306001839 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 522306001840 chaperone protein DnaJ; Provisional; Region: PRK10767 522306001841 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 522306001842 HSP70 interaction site [polypeptide binding]; other site 522306001843 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 522306001844 substrate binding site [polypeptide binding]; other site 522306001845 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 522306001846 Zn binding sites [ion binding]; other site 522306001847 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 522306001848 dimer interface [polypeptide binding]; other site 522306001849 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 522306001850 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 522306001851 putative ligand binding site [chemical binding]; other site 522306001852 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 522306001853 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 522306001854 active site 522306001855 HIGH motif; other site 522306001856 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 522306001857 KMSKS motif; other site 522306001858 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 522306001859 tRNA binding surface [nucleotide binding]; other site 522306001860 anticodon binding site; other site 522306001861 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306001862 binding surface 522306001863 TPR motif; other site 522306001864 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306001865 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 522306001866 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 522306001867 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 522306001868 substrate binding site [chemical binding]; other site 522306001869 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 522306001870 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 522306001871 substrate binding site [chemical binding]; other site 522306001872 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 522306001873 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 522306001874 ATP binding site [chemical binding]; other site 522306001875 putative Mg++ binding site [ion binding]; other site 522306001876 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 522306001877 nucleotide binding region [chemical binding]; other site 522306001878 ATP-binding site [chemical binding]; other site 522306001879 RQC domain; Region: RQC; cl09632 522306001880 HRDC domain; Region: HRDC; cl02578 522306001881 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 522306001882 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 522306001883 active site 522306001884 FMN binding site [chemical binding]; other site 522306001885 substrate binding site [chemical binding]; other site 522306001886 3Fe-4S cluster binding site [ion binding]; other site 522306001887 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 522306001888 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 522306001889 dimerization interface [polypeptide binding]; other site 522306001890 active site 522306001891 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 522306001892 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, cyanobacteria; Region: Thr-synth_2; cd01560 522306001893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306001894 catalytic residue [active] 522306001895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306001896 metal binding site [ion binding]; metal-binding site 522306001897 active site 522306001898 I-site; other site 522306001899 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 522306001900 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306001901 active site 522306001902 substrate pocket [chemical binding]; other site 522306001903 dimer interface [polypeptide binding]; other site 522306001904 proteolytic cleavage site; other site 522306001905 MORN repeat; Region: MORN; cl14787 522306001906 MORN repeat; Region: MORN; cl14787 522306001907 MORN repeat; Region: MORN; cl14787 522306001908 MORN repeat; Region: MORN; cl14787 522306001909 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306001910 binding surface 522306001911 TPR motif; other site 522306001912 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 522306001913 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 522306001914 Cache domain; Region: Cache_2; cl07034 522306001915 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 522306001916 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306001917 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522306001918 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306001919 dimer interface [polypeptide binding]; other site 522306001920 putative CheW interface [polypeptide binding]; other site 522306001921 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 522306001922 octamerization interface [polypeptide binding]; other site 522306001923 diferric-oxygen binding site [ion binding]; other site 522306001924 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 522306001925 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522306001926 putative substrate translocation pore; other site 522306001927 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306001928 ligand binding site [chemical binding]; other site 522306001929 Predicted permeases [General function prediction only]; Region: RarD; COG2962 522306001930 TIR domain; Region: TIR_2; cl15770 522306001931 transposase/IS protein; Provisional; Region: PRK09183 522306001932 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 522306001933 Walker A motif; other site 522306001934 ATP binding site [chemical binding]; other site 522306001935 Walker B motif; other site 522306001936 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306001937 Helix-turn-helix domains; Region: HTH; cl00088 522306001938 Integrase core domain; Region: rve; cl01316 522306001939 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 522306001940 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 522306001941 putative active site [active] 522306001942 putative NTP binding site [chemical binding]; other site 522306001943 putative nucleic acid binding site [nucleotide binding]; other site 522306001944 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 522306001945 Transposase; Region: DDE_Tnp_ISL3; pfam01610 522306001946 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 522306001947 DNA binding site [nucleotide binding] 522306001948 Int/Topo IB signature motif; other site 522306001949 active site 522306001950 YokU-like protein; Region: YokU; cl15819 522306001951 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 522306001952 Domain of unknown function DUF29; Region: DUF29; pfam01724 522306001953 ribonuclease G; Provisional; Region: PRK11712 522306001954 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 522306001955 homodimer interface [polypeptide binding]; other site 522306001956 oligonucleotide binding site [chemical binding]; other site 522306001957 putative protease; Provisional; Region: PRK15452 522306001958 Peptidase family U32; Region: Peptidase_U32; cl03113 522306001959 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 522306001960 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 522306001961 Lumazine binding domain; Region: Lum_binding; pfam00677 522306001962 Lumazine binding domain; Region: Lum_binding; pfam00677 522306001963 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 522306001964 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 522306001965 spermidine synthase; Provisional; Region: PRK03612 522306001966 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 522306001967 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 522306001968 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 522306001969 oligomeric interface; other site 522306001970 putative active site [active] 522306001971 homodimer interface [polypeptide binding]; other site 522306001972 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306001973 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 522306001974 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 522306001975 S-adenosylmethionine binding site [chemical binding]; other site 522306001976 Transposase [DNA replication, recombination, and repair]; Region: COG5421 522306001977 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522306001978 Helix-turn-helix domains; Region: HTH; cl00088 522306001979 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306001980 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306001981 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306001982 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 522306001983 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 522306001984 Ligand Binding Site [chemical binding]; other site 522306001985 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 522306001986 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 522306001987 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 522306001988 DctM-like transporters; Region: DctM; pfam06808 522306001989 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 522306001990 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 522306001991 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 522306001992 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 522306001993 Protein of unknown function (DUF615); Region: DUF615; cl01147 522306001994 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 522306001995 MPT binding site; other site 522306001996 trimer interface [polypeptide binding]; other site 522306001997 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 522306001998 dimerization interface [polypeptide binding]; other site 522306001999 active site 522306002000 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 522306002001 folate binding site [chemical binding]; other site 522306002002 NADP+ binding site [chemical binding]; other site 522306002003 Protein of unknown function (DUF721); Region: DUF721; cl02324 522306002004 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 522306002005 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 522306002006 cell division protein FtsZ; Validated; Region: PRK09330 522306002007 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 522306002008 nucleotide binding site [chemical binding]; other site 522306002009 SulA interaction site; other site 522306002010 cell division protein FtsA; Region: ftsA; TIGR01174 522306002011 Cell division protein FtsA; Region: FtsA; cl11496 522306002012 Cell division protein FtsA; Region: FtsA; cl11496 522306002013 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 522306002014 Cell division protein FtsQ; Region: FtsQ; pfam03799 522306002015 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 522306002016 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 522306002017 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306002018 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 522306002019 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 522306002020 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522306002021 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 522306002022 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 522306002023 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 522306002024 active site 522306002025 homodimer interface [polypeptide binding]; other site 522306002026 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 522306002027 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 522306002028 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522306002029 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 522306002030 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 522306002031 Mg++ binding site [ion binding]; other site 522306002032 putative catalytic motif [active] 522306002033 putative substrate binding site [chemical binding]; other site 522306002034 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 522306002035 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 522306002036 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522306002037 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 522306002038 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 522306002039 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 522306002040 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522306002041 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 522306002042 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 522306002043 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 522306002044 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 522306002045 Septum formation initiator; Region: DivIC; cl11433 522306002046 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 522306002047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002048 cell division protein MraZ; Reviewed; Region: PRK00326 522306002049 MraZ protein; Region: MraZ; pfam02381 522306002050 MraZ protein; Region: MraZ; pfam02381 522306002051 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 522306002052 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 522306002053 active site 522306002054 substrate binding pocket [chemical binding]; other site 522306002055 dimer interface [polypeptide binding]; other site 522306002056 Predicted methyltransferases [General function prediction only]; Region: COG0313 522306002057 Restriction endonuclease; Region: Mrr_cat; cl00516 522306002058 HIRAN domain; Region: HIRAN; cl07418 522306002059 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 522306002060 dimer interface [polypeptide binding]; other site 522306002061 active site 522306002062 BON domain; Region: BON; cl02771 522306002063 BON domain; Region: BON; cl02771 522306002064 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 522306002065 active site 522306002066 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 522306002067 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 522306002068 catalytic residues [active] 522306002069 UGMP family protein; Validated; Region: PRK09604 522306002070 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 522306002071 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; cl00047 522306002072 Helix-turn-helix domains; Region: HTH; cl00088 522306002073 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 522306002074 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 522306002075 N-terminal plug; other site 522306002076 ligand-binding site [chemical binding]; other site 522306002077 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 522306002078 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 522306002079 putative [4Fe-4S] binding site [ion binding]; other site 522306002080 putative molybdopterin cofactor binding site [chemical binding]; other site 522306002081 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 522306002082 putative molybdopterin cofactor binding site; other site 522306002083 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 522306002084 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 522306002085 LrgB-like family; Region: LrgB; cl00596 522306002086 LrgA family; Region: LrgA; cl00608 522306002087 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 522306002088 dimer interface [polypeptide binding]; other site 522306002089 substrate binding site [chemical binding]; other site 522306002090 metal binding sites [ion binding]; metal-binding site 522306002091 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 522306002092 putative dimer interface [polypeptide binding]; other site 522306002093 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 522306002094 catalytic residues [active] 522306002095 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306002096 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306002097 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306002098 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 522306002099 Uncharacterized conserved protein [Function unknown]; Region: COG2308 522306002100 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 522306002101 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 522306002102 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 522306002103 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 522306002104 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 522306002105 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 522306002106 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 522306002107 hinge; other site 522306002108 active site 522306002109 BolA-like protein; Region: BolA; cl00386 522306002110 ABC-2 type transporter; Region: ABC2_membrane; cl11417 522306002111 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 522306002112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306002113 Walker A/P-loop; other site 522306002114 ATP binding site [chemical binding]; other site 522306002115 Q-loop/lid; other site 522306002116 ABC transporter signature motif; other site 522306002117 Walker B; other site 522306002118 D-loop; other site 522306002119 H-loop/switch region; other site 522306002120 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 522306002121 anti sigma factor interaction site; other site 522306002122 regulatory phosphorylation site [posttranslational modification]; other site 522306002123 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 522306002124 VacJ like lipoprotein; Region: VacJ; cl01073 522306002125 mce related protein; Region: MCE; pfam02470 522306002126 Permease; Region: Permease; cl00510 522306002127 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 522306002128 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 522306002129 Walker A/P-loop; other site 522306002130 ATP binding site [chemical binding]; other site 522306002131 Q-loop/lid; other site 522306002132 ABC transporter signature motif; other site 522306002133 Walker B; other site 522306002134 D-loop; other site 522306002135 H-loop/switch region; other site 522306002136 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522306002137 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 522306002138 active site 522306002139 phosphorylation site [posttranslational modification] 522306002140 intermolecular recognition site; other site 522306002141 dimerization interface [polypeptide binding]; other site 522306002142 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 522306002143 Walker A motif; other site 522306002144 ATP binding site [chemical binding]; other site 522306002145 Walker B motif; other site 522306002146 arginine finger; other site 522306002147 Helix-turn-helix domains; Region: HTH; cl00088 522306002148 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 522306002149 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306002150 Walker A motif; other site 522306002151 ATP binding site [chemical binding]; other site 522306002152 Walker B motif; other site 522306002153 arginine finger; other site 522306002154 Sporulation related domain; Region: SPOR; cl10051 522306002155 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 522306002156 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 522306002157 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306002158 binding surface 522306002159 Tetratricopeptide repeat; Region: TPR_16; pfam13432 522306002160 TPR motif; other site 522306002161 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306002162 TPR repeat; Region: TPR_11; pfam13414 522306002163 binding surface 522306002164 TPR motif; other site 522306002165 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 522306002166 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 522306002167 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 522306002168 Walker A motif; other site 522306002169 ATP binding site [chemical binding]; other site 522306002170 Walker B motif; other site 522306002171 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 522306002172 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 522306002173 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 522306002174 Heme NO binding associated; Region: HNOBA; pfam07701 522306002175 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 522306002176 cyclase homology domain; Region: CHD; cd07302 522306002177 nucleotidyl binding site; other site 522306002178 metal binding site [ion binding]; metal-binding site 522306002179 dimer interface [polypeptide binding]; other site 522306002180 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522306002181 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 522306002182 ATP binding site [chemical binding]; other site 522306002183 Mg2+ binding site [ion binding]; other site 522306002184 G-X-G motif; other site 522306002185 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 522306002186 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 522306002187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002188 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 522306002189 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 522306002190 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 522306002191 putative active site [active] 522306002192 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 522306002193 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306002194 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 522306002195 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 522306002196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 522306002197 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 522306002198 OstA-like protein; Region: OstA; cl00844 522306002199 Phasin protein; Region: Phasin_2; cl11491 522306002200 Phasin protein; Region: Phasin_2; cl11491 522306002201 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 522306002202 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 522306002203 putative MPT binding site; other site 522306002204 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 522306002205 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 522306002206 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 522306002207 ATP binding site [chemical binding]; other site 522306002208 putative Mg++ binding site [ion binding]; other site 522306002209 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306002210 Helicase associated domain (HA2); Region: HA2; cl04503 522306002211 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 522306002212 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 522306002213 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 522306002214 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 522306002215 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 522306002216 Putative transposase; Region: Y2_Tnp; pfam04986 522306002217 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 522306002218 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 522306002219 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306002220 CoA-ligase; Region: Ligase_CoA; cl02894 522306002221 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 522306002222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002223 CoA-ligase; Region: Ligase_CoA; cl02894 522306002224 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 522306002225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002226 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 522306002227 active site 522306002228 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 522306002229 phosphopeptide binding site; other site 522306002230 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306002231 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 522306002232 GAF domain; Region: GAF; cl15785 522306002233 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 522306002234 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 522306002235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306002236 Walker A motif; other site 522306002237 ATP binding site [chemical binding]; other site 522306002238 Walker B motif; other site 522306002239 isocitrate dehydrogenase; Validated; Region: PRK07362 522306002240 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 522306002241 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 522306002242 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 522306002243 SdiA-regulated; Region: SdiA-regulated; pfam06977 522306002244 SdiA-regulated; Region: SdiA-regulated; cd09971 522306002245 putative active site [active] 522306002246 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 522306002247 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 522306002248 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 522306002249 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 522306002250 ATP binding site [chemical binding]; other site 522306002251 Mg2+ binding site [ion binding]; other site 522306002252 G-X-G motif; other site 522306002253 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 522306002254 anchoring element; other site 522306002255 dimer interface [polypeptide binding]; other site 522306002256 ATP binding site [chemical binding]; other site 522306002257 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 522306002258 active site 522306002259 metal binding site [ion binding]; metal-binding site 522306002260 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 522306002261 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 522306002262 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 522306002263 CAP-like domain; other site 522306002264 active site 522306002265 primary dimer interface [polypeptide binding]; other site 522306002266 hypothetical protein; Provisional; Region: PRK10756 522306002267 CreA protein; Region: CreA; pfam05981 522306002268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002269 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 522306002270 Glutamate-cysteine ligase; Region: GshA; pfam08886 522306002271 glutathione synthetase; Provisional; Region: PRK05246 522306002272 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 522306002273 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306002274 ApbE family; Region: ApbE; cl00643 522306002275 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 522306002276 active pocket/dimerization site; other site 522306002277 active site 522306002278 phosphorylation site [posttranslational modification] 522306002279 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 522306002280 regulatory protein interface [polypeptide binding]; other site 522306002281 active site 522306002282 regulatory phosphorylation site [posttranslational modification]; other site 522306002283 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 522306002284 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 522306002285 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 522306002286 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 522306002287 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306002288 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 522306002289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002290 muropeptide transporter; Validated; Region: ampG; PRK11010 522306002291 muropeptide transporter; Validated; Region: ampG; PRK11010 522306002292 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 522306002293 ligand binding site [chemical binding]; other site 522306002294 active site 522306002295 YqjK-like protein; Region: YqjK; pfam13997 522306002296 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 522306002297 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 522306002298 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 522306002299 putative active site [active] 522306002300 putative DNA binding site [nucleotide binding]; other site 522306002301 putative phosphate binding site [ion binding]; other site 522306002302 putative catalytic site [active] 522306002303 metal binding site A [ion binding]; metal-binding site 522306002304 putative AP binding site [nucleotide binding]; other site 522306002305 putative metal binding site B [ion binding]; other site 522306002306 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 522306002307 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522306002308 active site 522306002309 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 522306002310 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 522306002311 GatB domain; Region: GatB_Yqey; cl11497 522306002312 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 522306002313 Amidase; Region: Amidase; cl11426 522306002314 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 522306002315 rod shape-determining protein MreB; Provisional; Region: PRK13927 522306002316 hypothetical protein; Provisional; Region: PRK10039 522306002317 Cell division protein FtsA; Region: FtsA; cl11496 522306002318 rod shape-determining protein MreC; Region: MreC; pfam04085 522306002319 rod shape-determining protein MreD; Region: MreD; cl01087 522306002320 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 522306002321 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 522306002322 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 522306002323 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 522306002324 rare lipoprotein A; Region: rlpA; TIGR00413 522306002325 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 522306002326 Sporulation related domain; Region: SPOR; cl10051 522306002327 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306002328 PAS domain; Region: PAS_9; pfam13426 522306002329 Transposase [DNA replication, recombination, and repair]; Region: COG5421 522306002330 GAF domain; Region: GAF; cl15785 522306002331 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 522306002332 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 522306002333 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 522306002334 Protein of unknown function (DUF493); Region: DUF493; cl01102 522306002335 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 522306002336 lipoyl synthase; Provisional; Region: PRK05481 522306002337 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 522306002338 FeS/SAM binding site; other site 522306002339 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 522306002340 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 522306002341 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 522306002342 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 522306002343 Citrate synthase; Region: Citrate_synt; pfam00285 522306002344 oxalacetate binding site [chemical binding]; other site 522306002345 citrylCoA binding site [chemical binding]; other site 522306002346 coenzyme A binding site [chemical binding]; other site 522306002347 catalytic triad [active] 522306002348 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 522306002349 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 522306002350 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 522306002351 domain interface [polypeptide binding]; other site 522306002352 putative active site [active] 522306002353 catalytic site [active] 522306002354 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 522306002355 domain interface [polypeptide binding]; other site 522306002356 putative active site [active] 522306002357 catalytic site [active] 522306002358 Response regulator receiver domain; Region: Response_reg; pfam00072 522306002359 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 522306002360 active site 522306002361 phosphorylation site [posttranslational modification] 522306002362 intermolecular recognition site; other site 522306002363 dimerization interface [polypeptide binding]; other site 522306002364 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 522306002365 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 522306002366 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 522306002367 active site 522306002368 phosphorylation site [posttranslational modification] 522306002369 intermolecular recognition site; other site 522306002370 dimerization interface [polypeptide binding]; other site 522306002371 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522306002372 DNA binding residues [nucleotide binding] 522306002373 dimerization interface [polypeptide binding]; other site 522306002374 PAS domain; Region: PAS_9; pfam13426 522306002375 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 522306002376 putative active site [active] 522306002377 heme pocket [chemical binding]; other site 522306002378 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306002379 PAS fold; Region: PAS_4; pfam08448 522306002380 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 522306002381 Histidine kinase; Region: HisKA_3; pfam07730 522306002382 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 522306002383 ATP binding site [chemical binding]; other site 522306002384 Mg2+ binding site [ion binding]; other site 522306002385 G-X-G motif; other site 522306002386 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 522306002387 putative ligand binding site [chemical binding]; other site 522306002388 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 522306002389 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 522306002390 Protein of unknown function DUF86; Region: DUF86; cl01031 522306002391 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 522306002392 active site 522306002393 NTP binding site [chemical binding]; other site 522306002394 metal binding triad [ion binding]; metal-binding site 522306002395 antibiotic binding site [chemical binding]; other site 522306002396 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 522306002397 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 522306002398 Cytochrome C biogenesis protein; Region: CcmH; cl01179 522306002399 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 522306002400 catalytic residues [active] 522306002401 central insert; other site 522306002402 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 522306002403 CcmE; Region: CcmE; cl00994 522306002404 Heme exporter protein D (CcmD); Region: CcmD; cl11475 522306002405 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 522306002406 CcmB protein; Region: CcmB; cl01016 522306002407 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 522306002408 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306002409 Walker A/P-loop; other site 522306002410 ATP binding site [chemical binding]; other site 522306002411 Q-loop/lid; other site 522306002412 ABC transporter signature motif; other site 522306002413 Walker B; other site 522306002414 D-loop; other site 522306002415 H-loop/switch region; other site 522306002416 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 522306002417 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 522306002418 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 522306002419 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306002420 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 522306002421 Acylphosphatase; Region: Acylphosphatase; cl00551 522306002422 HypF finger; Region: zf-HYPF; pfam07503 522306002423 HypF finger; Region: zf-HYPF; pfam07503 522306002424 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 522306002425 HupF/HypC family; Region: HupF_HypC; cl00394 522306002426 Hydrogenase formation hypA family; Region: HypD; cl12072 522306002427 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 522306002428 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 522306002429 dimerization interface [polypeptide binding]; other site 522306002430 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 522306002431 ATP binding site [chemical binding]; other site 522306002432 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 522306002433 putative active site [active] 522306002434 putative substrate binding site [chemical binding]; other site 522306002435 putative cosubstrate binding site; other site 522306002436 catalytic site [active] 522306002437 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 522306002438 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 522306002439 substrate binding site [chemical binding]; other site 522306002440 oxyanion hole (OAH) forming residues; other site 522306002441 trimer interface [polypeptide binding]; other site 522306002442 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522306002443 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 522306002444 active site 522306002445 phosphorylation site [posttranslational modification] 522306002446 intermolecular recognition site; other site 522306002447 dimerization interface [polypeptide binding]; other site 522306002448 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 522306002449 Walker A motif; other site 522306002450 ATP binding site [chemical binding]; other site 522306002451 Walker B motif; other site 522306002452 arginine finger; other site 522306002453 Helix-turn-helix domains; Region: HTH; cl00088 522306002454 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 522306002455 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 522306002456 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 522306002457 spermidine synthase; Provisional; Region: PRK03612 522306002458 spermidine synthase; Provisional; Region: PRK03612 522306002459 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306002460 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 522306002461 Nitrogen regulatory protein P-II; Region: P-II; cl00412 522306002462 Nitrogen regulatory protein P-II; Region: P-II; smart00938 522306002463 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 522306002464 Membrane fusogenic activity; Region: BMFP; cl01115 522306002465 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 522306002466 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 522306002467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306002468 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 522306002469 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 522306002470 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522306002471 putative substrate translocation pore; other site 522306002472 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 522306002473 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 522306002474 putative substrate translocation pore; other site 522306002475 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 522306002476 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 522306002477 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 522306002478 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 522306002479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306002480 catalytic residue [active] 522306002481 Sporulation related domain; Region: SPOR; cl10051 522306002482 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 522306002483 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 522306002484 CoA-binding site [chemical binding]; other site 522306002485 ATP-binding [chemical binding]; other site 522306002486 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 522306002487 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 522306002488 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 522306002489 putative substrate translocation pore; other site 522306002490 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306002491 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306002492 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 522306002493 S-adenosylmethionine binding site [chemical binding]; other site 522306002494 gamma-glutamyl kinase; Provisional; Region: PRK05429 522306002495 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 522306002496 nucleotide binding site [chemical binding]; other site 522306002497 homotetrameric interface [polypeptide binding]; other site 522306002498 putative phosphate binding site [ion binding]; other site 522306002499 putative allosteric binding site; other site 522306002500 PUA domain; Region: PUA; cl00607 522306002501 GTPase CgtA; Reviewed; Region: obgE; PRK12299 522306002502 GTP1/OBG; Region: GTP1_OBG; pfam01018 522306002503 Obg GTPase; Region: Obg; cd01898 522306002504 G1 box; other site 522306002505 GTP/Mg2+ binding site [chemical binding]; other site 522306002506 Switch I region; other site 522306002507 G2 box; other site 522306002508 G3 box; other site 522306002509 Switch II region; other site 522306002510 G4 box; other site 522306002511 G5 box; other site 522306002512 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 522306002513 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 522306002514 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 522306002515 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 522306002516 substrate binding pocket [chemical binding]; other site 522306002517 chain length determination region; other site 522306002518 substrate-Mg2+ binding site; other site 522306002519 catalytic residues [active] 522306002520 aspartate-rich region 1; other site 522306002521 active site lid residues [active] 522306002522 aspartate-rich region 2; other site 522306002523 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 522306002524 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306002525 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 522306002526 dimer interface [polypeptide binding]; other site 522306002527 phosphorylation site [posttranslational modification] 522306002528 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 522306002529 ATP binding site [chemical binding]; other site 522306002530 Mg2+ binding site [ion binding]; other site 522306002531 G-X-G motif; other site 522306002532 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522306002533 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 522306002534 active site 522306002535 phosphorylation site [posttranslational modification] 522306002536 intermolecular recognition site; other site 522306002537 dimerization interface [polypeptide binding]; other site 522306002538 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 522306002539 Walker A motif; other site 522306002540 ATP binding site [chemical binding]; other site 522306002541 Walker B motif; other site 522306002542 arginine finger; other site 522306002543 Helix-turn-helix domains; Region: HTH; cl00088 522306002544 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 522306002545 amidase catalytic site [active] 522306002546 Zn binding residues [ion binding]; other site 522306002547 substrate binding site [chemical binding]; other site 522306002548 aminotransferase; Validated; Region: PRK07337 522306002549 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 522306002550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306002551 homodimer interface [polypeptide binding]; other site 522306002552 catalytic residue [active] 522306002553 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_GTP; cd00819 522306002554 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 522306002555 active site 522306002556 substrate-binding site [chemical binding]; other site 522306002557 metal-binding site [ion binding] 522306002558 GTP binding site [chemical binding]; other site 522306002559 malic enzyme; Reviewed; Region: PRK12862 522306002560 Malic enzyme, N-terminal domain; Region: malic; pfam00390 522306002561 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 522306002562 putative NAD(P) binding site [chemical binding]; other site 522306002563 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 522306002564 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 522306002565 active site 522306002566 nucleophile elbow; other site 522306002567 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 522306002568 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 522306002569 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306002570 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 522306002571 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 522306002572 dimer interface [polypeptide binding]; other site 522306002573 conserved gate region; other site 522306002574 putative PBP binding loops; other site 522306002575 ABC-ATPase subunit interface; other site 522306002576 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 522306002577 dimer interface [polypeptide binding]; other site 522306002578 conserved gate region; other site 522306002579 putative PBP binding loops; other site 522306002580 ABC-ATPase subunit interface; other site 522306002581 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 522306002582 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 522306002583 Walker A/P-loop; other site 522306002584 ATP binding site [chemical binding]; other site 522306002585 Q-loop/lid; other site 522306002586 ABC transporter signature motif; other site 522306002587 Walker B; other site 522306002588 D-loop; other site 522306002589 H-loop/switch region; other site 522306002590 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306002591 PAS domain; Region: PAS_9; pfam13426 522306002592 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306002593 metal binding site [ion binding]; metal-binding site 522306002594 active site 522306002595 I-site; other site 522306002596 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 522306002597 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 522306002598 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 522306002599 tRNA; other site 522306002600 putative tRNA binding site [nucleotide binding]; other site 522306002601 putative NADP binding site [chemical binding]; other site 522306002602 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 522306002603 peptide chain release factor 1; Validated; Region: prfA; PRK00591 522306002604 RF-1 domain; Region: RF-1; cl02875 522306002605 RF-1 domain; Region: RF-1; cl02875 522306002606 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 522306002607 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 522306002608 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 522306002609 putative GSH binding site [chemical binding]; other site 522306002610 catalytic residues [active] 522306002611 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 522306002612 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 522306002613 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 522306002614 Catalytic domain of Protein Kinases; Region: PKc; cd00180 522306002615 active site 522306002616 ATP binding site [chemical binding]; other site 522306002617 substrate binding site [chemical binding]; other site 522306002618 activation loop (A-loop); other site 522306002619 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 522306002620 ligand binding site [chemical binding]; other site 522306002621 argininosuccinate lyase; Provisional; Region: PRK00855 522306002622 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 522306002623 active sites [active] 522306002624 tetramer interface [polypeptide binding]; other site 522306002625 Cytochrome c; Region: Cytochrom_C; cl11414 522306002626 Cytochrome c; Region: Cytochrom_C; cl11414 522306002627 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 522306002628 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 522306002629 domain interfaces; other site 522306002630 active site 522306002631 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 522306002632 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 522306002633 active site 522306002634 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 522306002635 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 522306002636 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 522306002637 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 522306002638 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 522306002639 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306002640 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 522306002641 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 522306002642 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 522306002643 purine monophosphate binding site [chemical binding]; other site 522306002644 dimer interface [polypeptide binding]; other site 522306002645 putative catalytic residues [active] 522306002646 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 522306002647 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 522306002648 Helix-turn-helix domains; Region: HTH; cl00088 522306002649 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 522306002650 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 522306002651 FMN binding site [chemical binding]; other site 522306002652 active site 522306002653 catalytic residues [active] 522306002654 substrate binding site [chemical binding]; other site 522306002655 Septum formation topological specificity factor MinE; Region: MinE; cl00538 522306002656 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 522306002657 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 522306002658 Switch I; other site 522306002659 Switch II; other site 522306002660 septum site-determining protein MinC; Region: minC; TIGR01222 522306002661 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 522306002662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002663 hypothetical protein; Provisional; Region: PRK06996 522306002664 proline aminopeptidase P II; Provisional; Region: PRK10879 522306002665 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 522306002666 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 522306002667 active site 522306002668 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 522306002669 Substrate binding site; other site 522306002670 metal-binding site 522306002671 Phosphotransferase enzyme family; Region: APH; pfam01636 522306002672 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306002673 active site 522306002674 ATP binding site [chemical binding]; other site 522306002675 substrate binding site [chemical binding]; other site 522306002676 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 522306002677 OstA-like protein; Region: OstA; cl00844 522306002678 Organic solvent tolerance protein; Region: OstA_C; pfam04453 522306002679 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 522306002680 SurA N-terminal domain; Region: SurA_N_3; cl07813 522306002681 PPIC-type PPIASE domain; Region: Rotamase; cl08278 522306002682 PPIC-type PPIASE domain; Region: Rotamase; cl08278 522306002683 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 522306002684 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 522306002685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002686 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 522306002687 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 522306002688 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 522306002689 ligand binding site [chemical binding]; other site 522306002690 flexible hinge region; other site 522306002691 Helix-turn-helix domains; Region: HTH; cl00088 522306002692 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 522306002693 putative phosphate binding site [ion binding]; other site 522306002694 putative catalytic site [active] 522306002695 active site 522306002696 metal binding site A [ion binding]; metal-binding site 522306002697 DNA binding site [nucleotide binding] 522306002698 putative AP binding site [nucleotide binding]; other site 522306002699 putative metal binding site B [ion binding]; other site 522306002700 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 522306002701 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 522306002702 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 522306002703 catalytic residues [active] 522306002704 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 522306002705 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 522306002706 active site 522306002707 Zn binding site [ion binding]; other site 522306002708 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 522306002709 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 522306002710 ATP binding site [chemical binding]; other site 522306002711 active site 522306002712 substrate binding site [chemical binding]; other site 522306002713 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 522306002714 hypothetical protein; Provisional; Region: PRK08185 522306002715 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 522306002716 intersubunit interface [polypeptide binding]; other site 522306002717 active site 522306002718 zinc binding site [ion binding]; other site 522306002719 Na+ binding site [ion binding]; other site 522306002720 pyruvate kinase; Provisional; Region: PRK05826 522306002721 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 522306002722 domain interfaces; other site 522306002723 active site 522306002724 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002725 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 522306002726 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 522306002727 transketolase; Reviewed; Region: PRK12753 522306002728 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 522306002729 TPP-binding site [chemical binding]; other site 522306002730 dimer interface [polypeptide binding]; other site 522306002731 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 522306002732 PYR/PP interface [polypeptide binding]; other site 522306002733 dimer interface [polypeptide binding]; other site 522306002734 TPP binding site [chemical binding]; other site 522306002735 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 522306002736 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 522306002737 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 522306002738 dimer interface [polypeptide binding]; other site 522306002739 active site 522306002740 catalytic residue [active] 522306002741 metal binding site [ion binding]; metal-binding site 522306002742 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306002743 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 522306002744 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 522306002745 metal ion-dependent adhesion site (MIDAS); other site 522306002746 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 522306002747 PPIC-type PPIASE domain; Region: Rotamase; cl08278 522306002748 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 522306002749 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 522306002750 SLBB domain; Region: SLBB; pfam10531 522306002751 chain length determinant protein EpsF; Region: EpsF; TIGR03017 522306002752 Chain length determinant protein; Region: Wzz; cl15801 522306002753 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 522306002754 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306002755 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 522306002756 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 522306002757 Integrase core domain; Region: rve; cl01316 522306002758 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 522306002759 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 522306002760 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 522306002761 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 522306002762 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 522306002763 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 522306002764 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 522306002765 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 522306002766 active site 522306002767 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 522306002768 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 522306002769 inhibitor-cofactor binding pocket; inhibition site 522306002770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306002771 catalytic residue [active] 522306002772 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 522306002773 trimer interface [polypeptide binding]; other site 522306002774 active site 522306002775 substrate binding site [chemical binding]; other site 522306002776 CoA binding site [chemical binding]; other site 522306002777 MatE; Region: MatE; cl10513 522306002778 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 522306002779 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 522306002780 Probable Catalytic site; other site 522306002781 metal-binding site 522306002782 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 522306002783 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 522306002784 active site 522306002785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002786 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306002787 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 522306002788 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522306002789 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 522306002790 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 522306002791 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 522306002792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002793 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 522306002794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002795 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 522306002796 Protein of unknown function, DUF642; Region: DUF642; pfam04862 522306002797 PEP-CTERM motif; Region: VPEP; cl15443 522306002798 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 522306002799 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 522306002800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002801 Bacterial sugar transferase; Region: Bac_transf; cl00939 522306002802 VanZ like family; Region: VanZ; cl01971 522306002803 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 522306002804 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522306002805 catalytic residue [active] 522306002806 transposase/IS protein; Provisional; Region: PRK09183 522306002807 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 522306002808 Walker A motif; other site 522306002809 ATP binding site [chemical binding]; other site 522306002810 Walker B motif; other site 522306002811 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306002812 Helix-turn-helix domains; Region: HTH; cl00088 522306002813 Integrase core domain; Region: rve; cl01316 522306002814 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 522306002815 active site 522306002816 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306002817 Calx-beta domain; Region: Calx-beta; cl02522 522306002818 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306002819 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306002820 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306002821 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306002822 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 522306002823 AAA domain; Region: AAA_22; pfam13401 522306002824 Walker A motif; other site 522306002825 ATP binding site [chemical binding]; other site 522306002826 Walker B motif; other site 522306002827 arginine finger; other site 522306002828 Helix-turn-helix domains; Region: HTH; cl00088 522306002829 Integrase core domain; Region: rve; cl01316 522306002830 Integrase core domain; Region: rve_3; cl15866 522306002831 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 522306002832 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 522306002833 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306002834 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 522306002835 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 522306002836 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 522306002837 ATP binding site [chemical binding]; other site 522306002838 putative Mg++ binding site [ion binding]; other site 522306002839 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306002840 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 522306002841 Fic/DOC family; Region: Fic; cl00960 522306002842 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 522306002843 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522306002844 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 522306002845 HsdM N-terminal domain; Region: HsdM_N; pfam12161 522306002846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002847 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 522306002848 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306002849 YccA-like proteins; Region: YccA_like; cd10433 522306002850 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 522306002851 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 522306002852 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 522306002853 aminotransferase; Validated; Region: PRK08175 522306002854 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 522306002855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306002856 homodimer interface [polypeptide binding]; other site 522306002857 catalytic residue [active] 522306002858 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 522306002859 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 522306002860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306002861 homodimer interface [polypeptide binding]; other site 522306002862 catalytic residue [active] 522306002863 homoserine dehydrogenase; Provisional; Region: PRK06349 522306002864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002865 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 522306002866 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 522306002867 FOG: WD40 repeat [General function prediction only]; Region: COG2319 522306002868 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 522306002869 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306002870 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 522306002871 CoA-transferase family III; Region: CoA_transf_3; pfam02515 522306002872 Membrane transport protein; Region: Mem_trans; cl09117 522306002873 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 522306002874 active site 522306002875 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 522306002876 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 522306002877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002878 NAD(P) binding site [chemical binding]; other site 522306002879 active site 522306002880 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 522306002881 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 522306002882 active site 522306002883 catalytic tetrad [active] 522306002884 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 522306002885 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 522306002886 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 522306002887 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 522306002888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306002889 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 522306002890 Protein of unknown function (DUF466); Region: DUF466; cl01082 522306002891 carbon starvation protein A; Provisional; Region: PRK15015 522306002892 Carbon starvation protein CstA; Region: CstA; pfam02554 522306002893 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 522306002894 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 522306002895 active site 522306002896 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 522306002897 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 522306002898 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 522306002899 Integrase core domain; Region: rve; cl01316 522306002900 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 522306002901 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 522306002902 active site 522306002903 phosphorylation site [posttranslational modification] 522306002904 intermolecular recognition site; other site 522306002905 dimerization interface [polypeptide binding]; other site 522306002906 LytTr DNA-binding domain; Region: LytTR; cl04498 522306002907 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 522306002908 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 522306002909 Histidine kinase; Region: His_kinase; pfam06580 522306002910 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 522306002911 ATP binding site [chemical binding]; other site 522306002912 Mg2+ binding site [ion binding]; other site 522306002913 G-X-G motif; other site 522306002914 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 522306002915 TPR motif; other site 522306002916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 522306002917 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 522306002918 AAA domain; Region: AAA_22; pfam13401 522306002919 Walker A motif; other site 522306002920 ATP binding site [chemical binding]; other site 522306002921 Walker B motif; other site 522306002922 arginine finger; other site 522306002923 Helix-turn-helix domains; Region: HTH; cl00088 522306002924 Integrase core domain; Region: rve; cl01316 522306002925 Integrase core domain; Region: rve_3; cl15866 522306002926 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 522306002927 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 522306002928 Flagellar regulator YcgR; Region: YcgR; pfam07317 522306002929 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 522306002930 PilZ domain; Region: PilZ; cl01260 522306002931 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 522306002932 Iron-sulfur protein interface; other site 522306002933 proximal quinone binding site [chemical binding]; other site 522306002934 C-subunit interface; other site 522306002935 distal quinone binding site; other site 522306002936 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 522306002937 D-subunit interface [polypeptide binding]; other site 522306002938 Iron-sulfur protein interface; other site 522306002939 proximal quinone binding site [chemical binding]; other site 522306002940 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 522306002941 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 522306002942 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 522306002943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002944 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 522306002945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306002946 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 522306002947 active site 522306002948 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 522306002949 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 522306002950 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306002951 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 522306002952 synthetase active site [active] 522306002953 NTP binding site [chemical binding]; other site 522306002954 metal binding site [ion binding]; metal-binding site 522306002955 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 522306002956 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 522306002957 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 522306002958 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 522306002959 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 522306002960 catalytic site [active] 522306002961 G-X2-G-X-G-K; other site 522306002962 hypothetical protein; Provisional; Region: PRK11820 522306002963 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 522306002964 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 522306002965 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 522306002966 Catalytic domain of Protein Kinases; Region: PKc; cd00180 522306002967 active site 522306002968 ATP binding site [chemical binding]; other site 522306002969 substrate binding site [chemical binding]; other site 522306002970 activation loop (A-loop); other site 522306002971 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 522306002972 Protein phosphatase 2C; Region: PP2C; pfam00481 522306002973 active site 522306002974 ribonuclease PH; Reviewed; Region: rph; PRK00173 522306002975 Ribonuclease PH; Region: RNase_PH_bact; cd11362 522306002976 hexamer interface [polypeptide binding]; other site 522306002977 active site 522306002978 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 522306002979 active site 522306002980 dimerization interface [polypeptide binding]; other site 522306002981 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 522306002982 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 522306002983 FeS/SAM binding site; other site 522306002984 HemN C-terminal domain; Region: HemN_C; pfam06969 522306002985 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 522306002986 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 522306002987 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 522306002988 Gram-negative bacterial tonB protein; Region: TonB; cl10048 522306002989 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306002990 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 522306002991 ThiS interaction site; other site 522306002992 putative active site [active] 522306002993 tetramer interface [polypeptide binding]; other site 522306002994 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 522306002995 thiS-thiF/thiG interaction site; other site 522306002996 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 522306002997 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 522306002998 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 522306002999 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 522306003000 putative active site [active] 522306003001 putative metal binding site [ion binding]; other site 522306003002 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 522306003003 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 522306003004 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 522306003005 generic binding surface I; other site 522306003006 generic binding surface II; other site 522306003007 ParA-like protein; Provisional; Region: PHA02518 522306003008 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 522306003009 P-loop; other site 522306003010 Magnesium ion binding site [ion binding]; other site 522306003011 NMT1-like family; Region: NMT1_2; cl15260 522306003012 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 522306003013 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 522306003014 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 522306003015 NADP binding site [chemical binding]; other site 522306003016 dimer interface [polypeptide binding]; other site 522306003017 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 522306003018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306003019 Family description; Region: UvrD_C_2; cl15862 522306003020 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 522306003021 OpgC protein; Region: OpgC_C; cl00792 522306003022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306003023 Helix-turn-helix domains; Region: HTH; cl00088 522306003024 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 522306003025 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 522306003026 putative dimerization interface [polypeptide binding]; other site 522306003027 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 522306003028 AMP binding site [chemical binding]; other site 522306003029 metal binding site [ion binding]; metal-binding site 522306003030 active site 522306003031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306003032 transketolase; Reviewed; Region: PRK12753 522306003033 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 522306003034 TPP-binding site [chemical binding]; other site 522306003035 dimer interface [polypeptide binding]; other site 522306003036 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 522306003037 PYR/PP interface [polypeptide binding]; other site 522306003038 dimer interface [polypeptide binding]; other site 522306003039 TPP binding site [chemical binding]; other site 522306003040 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 522306003041 Cache domain; Region: Cache_2; cl07034 522306003042 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 522306003043 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 522306003044 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522306003045 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306003046 dimer interface [polypeptide binding]; other site 522306003047 putative CheW interface [polypeptide binding]; other site 522306003048 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 522306003049 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 522306003050 PAS domain; Region: PAS_9; pfam13426 522306003051 putative active site [active] 522306003052 heme pocket [chemical binding]; other site 522306003053 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 522306003054 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 522306003055 active site 522306003056 HIGH motif; other site 522306003057 KMSKS motif; other site 522306003058 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 522306003059 tRNA binding surface [nucleotide binding]; other site 522306003060 anticodon binding site; other site 522306003061 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 522306003062 dimer interface [polypeptide binding]; other site 522306003063 putative tRNA-binding site [nucleotide binding]; other site 522306003064 Tetraspanin family; Region: Tetraspannin; pfam00335 522306003065 Thermostable hemolysin; Region: T_hemolysin; pfam12261 522306003066 AMP-binding enzyme; Region: AMP-binding; cl15778 522306003067 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 522306003068 heme binding pocket [chemical binding]; other site 522306003069 short chain dehydrogenase; Provisional; Region: PRK09072 522306003070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306003071 NAD(P) binding site [chemical binding]; other site 522306003072 active site 522306003073 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306003074 TPR motif; other site 522306003075 binding surface 522306003076 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 522306003077 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 522306003078 active site 522306003079 phosphorylation site [posttranslational modification] 522306003080 intermolecular recognition site; other site 522306003081 dimerization interface [polypeptide binding]; other site 522306003082 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 522306003083 DNA binding site [nucleotide binding] 522306003084 sensor protein QseC; Provisional; Region: PRK10337 522306003085 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 522306003086 dimer interface [polypeptide binding]; other site 522306003087 phosphorylation site [posttranslational modification] 522306003088 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 522306003089 ATP binding site [chemical binding]; other site 522306003090 Mg2+ binding site [ion binding]; other site 522306003091 G-X-G motif; other site 522306003092 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 522306003093 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 522306003094 dimer interface [polypeptide binding]; other site 522306003095 active site 522306003096 CoA binding pocket [chemical binding]; other site 522306003097 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306003098 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 522306003099 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 522306003100 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 522306003101 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522306003102 active site 522306003103 HIGH motif; other site 522306003104 nucleotide binding site [chemical binding]; other site 522306003105 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 522306003106 KMSK motif region; other site 522306003107 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 522306003108 tRNA binding surface [nucleotide binding]; other site 522306003109 anticodon binding site; other site 522306003110 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 522306003111 Sporulation related domain; Region: SPOR; cl10051 522306003112 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 522306003113 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 522306003114 catalytic residues [active] 522306003115 hinge region; other site 522306003116 alpha helical domain; other site 522306003117 short chain dehydrogenase; Provisional; Region: PRK08251 522306003118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306003119 NAD(P) binding site [chemical binding]; other site 522306003120 active site 522306003121 Uncharacterized conserved protein [Function unknown]; Region: COG3287 522306003122 FIST N domain; Region: FIST; cl10701 522306003123 FIST C domain; Region: FIST_C; pfam10442 522306003124 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 522306003125 PAS domain; Region: PAS_9; pfam13426 522306003126 putative active site [active] 522306003127 heme pocket [chemical binding]; other site 522306003128 PAS domain S-box; Region: sensory_box; TIGR00229 522306003129 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 522306003130 putative active site [active] 522306003131 heme pocket [chemical binding]; other site 522306003132 PAS fold; Region: PAS_4; pfam08448 522306003133 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 522306003134 putative active site [active] 522306003135 heme pocket [chemical binding]; other site 522306003136 PAS fold; Region: PAS_3; pfam08447 522306003137 hypothetical protein; Provisional; Region: PRK13560 522306003138 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 522306003139 putative active site [active] 522306003140 heme pocket [chemical binding]; other site 522306003141 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522306003142 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 522306003143 dimer interface [polypeptide binding]; other site 522306003144 phosphorylation site [posttranslational modification] 522306003145 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 522306003146 ATP binding site [chemical binding]; other site 522306003147 Mg2+ binding site [ion binding]; other site 522306003148 G-X-G motif; other site 522306003149 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 522306003150 putative binding surface; other site 522306003151 active site 522306003152 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 522306003153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306003154 NAD(P) binding site [chemical binding]; other site 522306003155 active site 522306003156 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 522306003157 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 522306003158 intersubunit interface [polypeptide binding]; other site 522306003159 Peptidase family U32; Region: Peptidase_U32; cl03113 522306003160 Peptidase family U32; Region: Peptidase_U32; cl03113 522306003161 SCP-2 sterol transfer family; Region: SCP2; cl01225 522306003162 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 522306003163 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 522306003164 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 522306003165 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 522306003166 CrcB-like protein; Region: CRCB; cl09114 522306003167 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 522306003168 nickel binding site [ion binding]; other site 522306003169 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 522306003170 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 522306003171 NADH dehydrogenase subunit G; Validated; Region: PRK08166 522306003172 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 522306003173 catalytic loop [active] 522306003174 iron binding site [ion binding]; other site 522306003175 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 522306003176 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 522306003177 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, hoxF; composed of proteins similar to the NAD-reducing hydrogenase (hoxS) alpha subunit of Alcaligenes eutrophus H16. HoxS is a cytoplasmic hydrogenase...; Region: TRX_Fd_NuoE_hoxF; cd03083 522306003178 putative dimer interface [polypeptide binding]; other site 522306003179 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 522306003180 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 522306003181 SLBB domain; Region: SLBB; pfam10531 522306003182 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 522306003183 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 522306003184 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 522306003185 dimer interaction site [polypeptide binding]; other site 522306003186 substrate-binding tunnel; other site 522306003187 active site 522306003188 catalytic site [active] 522306003189 substrate binding site [chemical binding]; other site 522306003190 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 522306003191 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 522306003192 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 522306003193 active site 522306003194 dimer interface [polypeptide binding]; other site 522306003195 effector binding site; other site 522306003196 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 522306003197 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 522306003198 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 522306003199 M28 Zn-Peptidases; Region: M28_like_1; cd05640 522306003200 metal binding site [ion binding]; metal-binding site 522306003201 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 522306003202 RNA/DNA binding site [nucleotide binding]; other site 522306003203 RRM dimerization site [polypeptide binding]; other site 522306003204 helicase 45; Provisional; Region: PTZ00424 522306003205 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 522306003206 ATP binding site [chemical binding]; other site 522306003207 Mg++ binding site [ion binding]; other site 522306003208 motif III; other site 522306003209 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 522306003210 nucleotide binding region [chemical binding]; other site 522306003211 ATP-binding site [chemical binding]; other site 522306003212 CHAT domain; Region: CHAT; pfam12770 522306003213 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 522306003214 Domain of unknown function DUF21; Region: DUF21; pfam01595 522306003215 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 522306003216 Transporter associated domain; Region: CorC_HlyC; cl08393 522306003217 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 522306003218 Domain of unknown function DUF21; Region: DUF21; pfam01595 522306003219 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 522306003220 Transporter associated domain; Region: CorC_HlyC; cl08393 522306003221 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 522306003222 active site 522306003223 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 522306003224 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 522306003225 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 522306003226 LamB/YcsF family; Region: LamB_YcsF; cl00664 522306003227 Predicted ATPase [General function prediction only]; Region: COG1485 522306003228 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 522306003229 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 522306003230 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306003231 metal binding site [ion binding]; metal-binding site 522306003232 active site 522306003233 I-site; other site 522306003234 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 522306003235 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 522306003236 homodimer interface [polypeptide binding]; other site 522306003237 substrate-cofactor binding pocket; other site 522306003238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306003239 catalytic residue [active] 522306003240 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 522306003241 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306003242 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 522306003243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306003244 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 522306003245 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 522306003246 dimer interface [polypeptide binding]; other site 522306003247 putative anticodon binding site; other site 522306003248 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 522306003249 motif 1; other site 522306003250 active site 522306003251 motif 2; other site 522306003252 motif 3; other site 522306003253 peptide chain release factor 2; Validated; Region: prfB; PRK00578 522306003254 RF-1 domain; Region: RF-1; cl02875 522306003255 RF-1 domain; Region: RF-1; cl02875 522306003256 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 522306003257 Helix-turn-helix domain; Region: HTH_18; pfam12833 522306003258 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522306003259 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306003260 metal binding site [ion binding]; metal-binding site 522306003261 active site 522306003262 I-site; other site 522306003263 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 522306003264 HDOD domain; Region: HDOD; pfam08668 522306003265 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 522306003266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306003267 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 522306003268 NAD(P) binding site [chemical binding]; other site 522306003269 active site 522306003270 Integrase core domain; Region: rve; cl01316 522306003271 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 522306003272 DHH family; Region: DHH; pfam01368 522306003273 DHHA1 domain; Region: DHHA1; pfam02272 522306003274 Sulfatase; Region: Sulfatase; cl10460 522306003275 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 522306003276 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522306003277 FtsX-like permease family; Region: FtsX; cl15850 522306003278 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 522306003279 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 522306003280 Walker A/P-loop; other site 522306003281 ATP binding site [chemical binding]; other site 522306003282 Q-loop/lid; other site 522306003283 ABC transporter signature motif; other site 522306003284 Walker B; other site 522306003285 D-loop; other site 522306003286 H-loop/switch region; other site 522306003287 Nitrate and nitrite sensing; Region: NIT; pfam08376 522306003288 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 522306003289 dimer interface [polypeptide binding]; other site 522306003290 substrate binding pocket (H-site) [chemical binding]; other site 522306003291 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306003292 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522306003293 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306003294 dimer interface [polypeptide binding]; other site 522306003295 putative CheW interface [polypeptide binding]; other site 522306003296 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 522306003297 Competence protein; Region: Competence; cl00471 522306003298 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306003299 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 522306003300 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 522306003301 Competence protein; Region: Competence; cl00471 522306003302 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306003303 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 522306003304 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 522306003305 Transposase IS200 like; Region: Y1_Tnp; cl00848 522306003306 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 522306003307 active site 522306003308 metal binding site [ion binding]; metal-binding site 522306003309 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 522306003310 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 522306003311 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306003312 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 522306003313 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 522306003314 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 522306003315 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 522306003316 EamA-like transporter family; Region: EamA; cl01037 522306003317 EamA-like transporter family; Region: EamA; cl01037 522306003318 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 522306003319 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306003320 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 522306003321 synthetase active site [active] 522306003322 NTP binding site [chemical binding]; other site 522306003323 metal binding site [ion binding]; metal-binding site 522306003324 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 522306003325 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 522306003326 polyphosphate kinase; Provisional; Region: PRK05443 522306003327 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 522306003328 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 522306003329 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 522306003330 putative domain interface [polypeptide binding]; other site 522306003331 putative active site [active] 522306003332 catalytic site [active] 522306003333 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 522306003334 putative domain interface [polypeptide binding]; other site 522306003335 putative active site [active] 522306003336 catalytic site [active] 522306003337 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 522306003338 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 522306003339 Permease; Region: Permease; cl00510 522306003340 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 522306003341 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 522306003342 Walker A/P-loop; other site 522306003343 ATP binding site [chemical binding]; other site 522306003344 Q-loop/lid; other site 522306003345 ABC transporter signature motif; other site 522306003346 Walker B; other site 522306003347 D-loop; other site 522306003348 H-loop/switch region; other site 522306003349 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 522306003350 mce related protein; Region: MCE; pfam02470 522306003351 Protein of unknown function (DUF330); Region: DUF330; cl01135 522306003352 acyl-CoA synthetase; Validated; Region: PRK08162 522306003353 AMP-binding enzyme; Region: AMP-binding; cl15778 522306003354 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306003355 enoyl-CoA hydratase; Validated; Region: PRK08139 522306003356 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 522306003357 substrate binding site [chemical binding]; other site 522306003358 oxyanion hole (OAH) forming residues; other site 522306003359 trimer interface [polypeptide binding]; other site 522306003360 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306003361 metal binding site [ion binding]; metal-binding site 522306003362 active site 522306003363 I-site; other site 522306003364 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 522306003365 S-adenosylmethionine binding site [chemical binding]; other site 522306003366 Ion channel; Region: Ion_trans_2; cl11596 522306003367 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 522306003368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306003369 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 522306003370 putative active site [active] 522306003371 putative metal binding residues [ion binding]; other site 522306003372 signature motif; other site 522306003373 putative triphosphate binding site [ion binding]; other site 522306003374 CHAD domain; Region: CHAD; cl10506 522306003375 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 522306003376 MgtE intracellular N domain; Region: MgtE_N; cl15244 522306003377 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 522306003378 Divalent cation transporter; Region: MgtE; cl00786 522306003379 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306003380 high affinity sulphate transporter 1; Region: sulP; TIGR00815 522306003381 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306003382 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 522306003383 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 522306003384 NeuB family; Region: NeuB; cl00496 522306003385 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 522306003386 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 522306003387 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 522306003388 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 522306003389 ATP binding site [chemical binding]; other site 522306003390 putative Mg++ binding site [ion binding]; other site 522306003391 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 522306003392 nucleotide binding region [chemical binding]; other site 522306003393 ATP-binding site [chemical binding]; other site 522306003394 TRCF domain; Region: TRCF; cl04088 522306003395 NAD-dependent deacetylase; Provisional; Region: PRK00481 522306003396 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 522306003397 NAD+ binding site [chemical binding]; other site 522306003398 substrate binding site [chemical binding]; other site 522306003399 Zn binding site [ion binding]; other site 522306003400 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306003401 ligand binding site [chemical binding]; other site 522306003402 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 522306003403 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 522306003404 active site 522306003405 putative substrate binding pocket [chemical binding]; other site 522306003406 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306003407 ligand binding site [chemical binding]; other site 522306003408 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 522306003409 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 522306003410 S-adenosylmethionine binding site [chemical binding]; other site 522306003411 phosphoglycolate phosphatase; Provisional; Region: PRK13222 522306003412 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 522306003413 motif II; other site 522306003414 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 522306003415 putative active site [active] 522306003416 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 522306003417 homodimer interaction site [polypeptide binding]; other site 522306003418 cofactor binding site; other site 522306003419 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 522306003420 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 522306003421 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 522306003422 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 522306003423 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 522306003424 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 522306003425 protein binding site [polypeptide binding]; other site 522306003426 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522306003427 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 522306003428 substrate binding pocket [chemical binding]; other site 522306003429 membrane-bound complex binding site; other site 522306003430 hinge residues; other site 522306003431 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 522306003432 active site 522306003433 homodimer interface [polypeptide binding]; other site 522306003434 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 522306003435 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 522306003436 dimer interface [polypeptide binding]; other site 522306003437 conserved gate region; other site 522306003438 putative PBP binding loops; other site 522306003439 ABC-ATPase subunit interface; other site 522306003440 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 522306003441 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 522306003442 dimer interface [polypeptide binding]; other site 522306003443 conserved gate region; other site 522306003444 putative PBP binding loops; other site 522306003445 ABC-ATPase subunit interface; other site 522306003446 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 522306003447 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 522306003448 Walker A/P-loop; other site 522306003449 ATP binding site [chemical binding]; other site 522306003450 Q-loop/lid; other site 522306003451 ABC transporter signature motif; other site 522306003452 Walker B; other site 522306003453 D-loop; other site 522306003454 H-loop/switch region; other site 522306003455 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 522306003456 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 522306003457 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; cl03075 522306003458 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 522306003459 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 522306003460 Nitrate and nitrite sensing; Region: NIT; pfam08376 522306003461 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306003462 dimer interface [polypeptide binding]; other site 522306003463 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 522306003464 putative CheW interface [polypeptide binding]; other site 522306003465 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 522306003466 Flagellin N-methylase; Region: FliB; cl00497 522306003467 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 522306003468 AzlC protein; Region: AzlC; cl00570 522306003469 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 522306003470 dimer interface [polypeptide binding]; other site 522306003471 phosphorylation site [posttranslational modification] 522306003472 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 522306003473 ATP binding site [chemical binding]; other site 522306003474 Mg2+ binding site [ion binding]; other site 522306003475 G-X-G motif; other site 522306003476 Response regulator receiver domain; Region: Response_reg; pfam00072 522306003477 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 522306003478 active site 522306003479 phosphorylation site [posttranslational modification] 522306003480 intermolecular recognition site; other site 522306003481 dimerization interface [polypeptide binding]; other site 522306003482 Maf-like protein; Region: Maf; pfam02545 522306003483 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 522306003484 active site 522306003485 dimer interface [polypeptide binding]; other site 522306003486 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 522306003487 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 522306003488 Oligomerisation domain; Region: Oligomerisation; cl00519 522306003489 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 522306003490 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 522306003491 active site 522306003492 (T/H)XGH motif; other site 522306003493 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 522306003494 Phosphotransferase enzyme family; Region: APH; pfam01636 522306003495 putative active site [active] 522306003496 putative substrate binding site [chemical binding]; other site 522306003497 ATP binding site [chemical binding]; other site 522306003498 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 522306003499 DNA polymerase I; Provisional; Region: PRK05755 522306003500 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 522306003501 active site 522306003502 metal binding site 1 [ion binding]; metal-binding site 522306003503 putative 5' ssDNA interaction site; other site 522306003504 metal binding site 3; metal-binding site 522306003505 metal binding site 2 [ion binding]; metal-binding site 522306003506 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 522306003507 putative DNA binding site [nucleotide binding]; other site 522306003508 putative metal binding site [ion binding]; other site 522306003509 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 522306003510 active site 522306003511 catalytic site [active] 522306003512 substrate binding site [chemical binding]; other site 522306003513 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 522306003514 active site 522306003515 DNA binding site [nucleotide binding] 522306003516 catalytic site [active] 522306003517 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 522306003518 putative active site [active] 522306003519 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 522306003520 Fic family protein [Function unknown]; Region: COG3177 522306003521 Fic/DOC family; Region: Fic; cl00960 522306003522 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 522306003523 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306003524 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 522306003525 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 522306003526 active site residue [active] 522306003527 Transglycosylase; Region: Transgly; cl07896 522306003528 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 522306003529 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 522306003530 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 522306003531 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 522306003532 DNA-binding interface [nucleotide binding]; DNA binding site 522306003533 haemagglutination activity domain; Region: Haemagg_act; cl05436 522306003534 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306003535 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 522306003536 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 522306003537 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 522306003538 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306003539 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 522306003540 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 522306003541 carboxyltransferase (CT) interaction site; other site 522306003542 biotinylation site [posttranslational modification]; other site 522306003543 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 522306003544 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 522306003545 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 522306003546 membrane ATPase/protein kinase; Provisional; Region: PRK09435 522306003547 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 522306003548 Walker A; other site 522306003549 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306003550 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 522306003551 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 522306003552 active site 522306003553 substrate binding site [chemical binding]; other site 522306003554 coenzyme B12 binding site [chemical binding]; other site 522306003555 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 522306003556 B12 binding site [chemical binding]; other site 522306003557 cobalt ligand [ion binding]; other site 522306003558 Transcriptional regulators [Transcription]; Region: GntR; COG1802 522306003559 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522306003560 DNA-binding site [nucleotide binding]; DNA binding site 522306003561 FCD domain; Region: FCD; cl11656 522306003562 enoyl-CoA hydratase; Provisional; Region: PRK06127 522306003563 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 522306003564 substrate binding site [chemical binding]; other site 522306003565 oxyanion hole (OAH) forming residues; other site 522306003566 trimer interface [polypeptide binding]; other site 522306003567 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 522306003568 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 522306003569 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 522306003570 NADP binding site [chemical binding]; other site 522306003571 active site 522306003572 putative substrate binding site [chemical binding]; other site 522306003573 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 522306003574 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 522306003575 NAD binding site [chemical binding]; other site 522306003576 substrate binding site [chemical binding]; other site 522306003577 homodimer interface [polypeptide binding]; other site 522306003578 active site 522306003579 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 522306003580 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 522306003581 Substrate binding site; other site 522306003582 Cupin domain; Region: Cupin_2; cl09118 522306003583 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 522306003584 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 522306003585 putative active site [active] 522306003586 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 522306003587 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 522306003588 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 522306003589 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 522306003590 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 522306003591 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 522306003592 S-adenosylmethionine binding site [chemical binding]; other site 522306003593 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 522306003594 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 522306003595 trimer interface [polypeptide binding]; other site 522306003596 eyelet of channel; other site 522306003597 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 522306003598 trimer interface [polypeptide binding]; other site 522306003599 eyelet of channel; other site 522306003600 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 522306003601 active site 522306003602 ribulose/triose binding site [chemical binding]; other site 522306003603 phosphate binding site [ion binding]; other site 522306003604 substrate (anthranilate) binding pocket [chemical binding]; other site 522306003605 product (indole) binding pocket [chemical binding]; other site 522306003606 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 522306003607 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 522306003608 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 522306003609 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 522306003610 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 522306003611 glutamine binding [chemical binding]; other site 522306003612 catalytic triad [active] 522306003613 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 522306003614 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 522306003615 catalytic core [active] 522306003616 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 522306003617 Protein of unknown function, DUF399; Region: DUF399; cl01139 522306003618 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 522306003619 protein binding site [polypeptide binding]; other site 522306003620 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 522306003621 Zn binding site [ion binding]; other site 522306003622 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 522306003623 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 522306003624 putative dimer interface [polypeptide binding]; other site 522306003625 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 522306003626 Found in ATP-dependent protease La (LON); Region: LON; smart00464 522306003627 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 522306003628 Walker A motif; other site 522306003629 ATP binding site [chemical binding]; other site 522306003630 Walker B motif; other site 522306003631 arginine finger; other site 522306003632 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 522306003633 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 522306003634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 522306003635 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 522306003636 NMD3 family; Region: NMD3; pfam04981 522306003637 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 522306003638 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 522306003639 S-adenosylmethionine binding site [chemical binding]; other site 522306003640 anthranilate synthase component I; Provisional; Region: PRK13565 522306003641 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 522306003642 chorismate binding enzyme; Region: Chorismate_bind; cl10555 522306003643 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 522306003644 motif II; other site 522306003645 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 522306003646 substrate binding site [chemical binding]; other site 522306003647 hexamer interface [polypeptide binding]; other site 522306003648 metal binding site [ion binding]; metal-binding site 522306003649 Protein of unknown function (DUF525); Region: DUF525; cl01119 522306003650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306003651 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 522306003652 heterotetramer interface [polypeptide binding]; other site 522306003653 active site pocket [active] 522306003654 cleavage site 522306003655 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 522306003656 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 522306003657 SEC-C motif; Region: SEC-C; pfam02810 522306003658 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 522306003659 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 522306003660 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 522306003661 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 522306003662 active site 522306003663 phosphorylation site [posttranslational modification] 522306003664 intermolecular recognition site; other site 522306003665 dimerization interface [polypeptide binding]; other site 522306003666 CheB methylesterase; Region: CheB_methylest; pfam01339 522306003667 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 522306003668 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 522306003669 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 522306003670 protein binding site [polypeptide binding]; other site 522306003671 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 522306003672 protein binding site [polypeptide binding]; other site 522306003673 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522306003674 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 522306003675 ATP binding site [chemical binding]; other site 522306003676 Mg2+ binding site [ion binding]; other site 522306003677 G-X-G motif; other site 522306003678 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 522306003679 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 522306003680 active site 522306003681 phosphorylation site [posttranslational modification] 522306003682 intermolecular recognition site; other site 522306003683 dimerization interface [polypeptide binding]; other site 522306003684 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 522306003685 DNA binding site [nucleotide binding] 522306003686 Double zinc ribbon; Region: DZR; pfam12773 522306003687 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 522306003688 NMT1-like family; Region: NMT1_2; cl15260 522306003689 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 522306003690 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 522306003691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306003692 homodimer interface [polypeptide binding]; other site 522306003693 catalytic residue [active] 522306003694 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 522306003695 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 522306003696 putative ligand binding site [chemical binding]; other site 522306003697 HEAT repeats; Region: HEAT_2; pfam13646 522306003698 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 522306003699 TM-ABC transporter signature motif; other site 522306003700 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 522306003701 TM-ABC transporter signature motif; other site 522306003702 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 522306003703 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 522306003704 Walker A/P-loop; other site 522306003705 ATP binding site [chemical binding]; other site 522306003706 Q-loop/lid; other site 522306003707 ABC transporter signature motif; other site 522306003708 Walker B; other site 522306003709 D-loop; other site 522306003710 H-loop/switch region; other site 522306003711 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 522306003712 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 522306003713 Walker A/P-loop; other site 522306003714 ATP binding site [chemical binding]; other site 522306003715 Q-loop/lid; other site 522306003716 ABC transporter signature motif; other site 522306003717 Walker B; other site 522306003718 D-loop; other site 522306003719 H-loop/switch region; other site 522306003720 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306003721 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306003722 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306003723 binding surface 522306003724 TPR motif; other site 522306003725 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306003726 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306003727 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306003728 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306003729 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 522306003730 UreD urease accessory protein; Region: UreD; cl00530 522306003731 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 522306003732 alpha-gamma subunit interface [polypeptide binding]; other site 522306003733 beta-gamma subunit interface [polypeptide binding]; other site 522306003734 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 522306003735 gamma-beta subunit interface [polypeptide binding]; other site 522306003736 alpha-beta subunit interface [polypeptide binding]; other site 522306003737 urease subunit alpha; Reviewed; Region: ureC; PRK13207 522306003738 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 522306003739 subunit interactions [polypeptide binding]; other site 522306003740 active site 522306003741 flap region; other site 522306003742 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 522306003743 dimer interface [polypeptide binding]; other site 522306003744 catalytic residues [active] 522306003745 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 522306003746 UreF; Region: UreF; pfam01730 522306003747 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306003748 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522306003749 active site 522306003750 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 522306003751 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 522306003752 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 522306003753 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 522306003754 active site 522306003755 dimer interface [polypeptide binding]; other site 522306003756 motif 1; other site 522306003757 motif 2; other site 522306003758 motif 3; other site 522306003759 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 522306003760 anticodon binding site; other site 522306003761 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 522306003762 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 522306003763 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 522306003764 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 522306003765 ribosomal protein L20; Region: rpl20; CHL00068 522306003766 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 522306003767 23S rRNA binding site [nucleotide binding]; other site 522306003768 L21 binding site [polypeptide binding]; other site 522306003769 L13 binding site [polypeptide binding]; other site 522306003770 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 522306003771 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 522306003772 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 522306003773 dimer interface [polypeptide binding]; other site 522306003774 motif 1; other site 522306003775 active site 522306003776 motif 2; other site 522306003777 motif 3; other site 522306003778 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 522306003779 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 522306003780 putative tRNA-binding site [nucleotide binding]; other site 522306003781 B3/4 domain; Region: B3_4; cl11458 522306003782 tRNA synthetase B5 domain; Region: B5; cl08394 522306003783 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 522306003784 dimer interface [polypeptide binding]; other site 522306003785 motif 1; other site 522306003786 motif 3; other site 522306003787 motif 2; other site 522306003788 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 522306003789 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 522306003790 IHF - DNA interface [nucleotide binding]; other site 522306003791 IHF dimer interface [polypeptide binding]; other site 522306003792 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 522306003793 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 522306003794 DNA binding residues [nucleotide binding] 522306003795 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522306003796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 522306003797 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 522306003798 PAS domain S-box; Region: sensory_box; TIGR00229 522306003799 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 522306003800 putative active site [active] 522306003801 heme pocket [chemical binding]; other site 522306003802 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306003803 PAS domain; Region: PAS_9; pfam13426 522306003804 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 522306003805 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306003806 metal binding site [ion binding]; metal-binding site 522306003807 active site 522306003808 I-site; other site 522306003809 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 522306003810 Protein of unknown function, DUF485; Region: DUF485; cl01231 522306003811 Sodium:solute symporter family; Region: SSF; cl00456 522306003812 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 522306003813 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 522306003814 Tetramer interface [polypeptide binding]; other site 522306003815 active site 522306003816 FMN-binding site [chemical binding]; other site 522306003817 Protein of unknown function (DUF465); Region: DUF465; cl01070 522306003818 MFS_1 like family; Region: MFS_1_like; pfam12832 522306003819 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 522306003820 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 522306003821 tartrate dehydrogenase; Provisional; Region: PRK08194 522306003822 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 522306003823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306003824 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 522306003825 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 522306003826 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 522306003827 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 522306003828 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 522306003829 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 522306003830 Rhodopirellula transposase DDE domain; Region: DDE_Tnp_ISAZ013; pfam07592 522306003831 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 522306003832 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 522306003833 dimerization interface 3.5A [polypeptide binding]; other site 522306003834 active site 522306003835 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 522306003836 active site 522306003837 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 522306003838 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 522306003839 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306003840 catalytic residue [active] 522306003841 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 522306003842 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 522306003843 substrate binding site [chemical binding]; other site 522306003844 active site 522306003845 catalytic residues [active] 522306003846 heterodimer interface [polypeptide binding]; other site 522306003847 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 522306003848 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 522306003849 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 522306003850 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522306003851 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 522306003852 Sporulation related domain; Region: SPOR; cl10051 522306003853 Colicin V production protein; Region: Colicin_V; cl00567 522306003854 amidophosphoribosyltransferase; Provisional; Region: PRK09246 522306003855 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 522306003856 active site 522306003857 tetramer interface [polypeptide binding]; other site 522306003858 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522306003859 active site 522306003860 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 522306003861 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 522306003862 homodimer interface [polypeptide binding]; other site 522306003863 substrate-cofactor binding pocket; other site 522306003864 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306003865 catalytic residue [active] 522306003866 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 522306003867 substrate binding site [chemical binding]; other site 522306003868 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 522306003869 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 522306003870 substrate binding site [chemical binding]; other site 522306003871 ligand binding site [chemical binding]; other site 522306003872 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 522306003873 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 522306003874 active site 522306003875 catalytic residues [active] 522306003876 metal binding site [ion binding]; metal-binding site 522306003877 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 522306003878 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 522306003879 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 522306003880 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 522306003881 trimer interface [polypeptide binding]; other site 522306003882 active site 522306003883 UDP-GlcNAc binding site [chemical binding]; other site 522306003884 lipid binding site [chemical binding]; lipid-binding site 522306003885 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 522306003886 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 522306003887 TPP-binding site [chemical binding]; other site 522306003888 tetramer interface [polypeptide binding]; other site 522306003889 heterodimer interface [polypeptide binding]; other site 522306003890 phosphorylation loop region [posttranslational modification] 522306003891 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 522306003892 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 522306003893 PYR/PP interface [polypeptide binding]; other site 522306003894 dimer interface [polypeptide binding]; other site 522306003895 TPP binding site [chemical binding]; other site 522306003896 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 522306003897 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 522306003898 E3 interaction surface; other site 522306003899 lipoyl attachment site [posttranslational modification]; other site 522306003900 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 522306003901 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 522306003902 dimer interface [polypeptide binding]; other site 522306003903 active site 522306003904 CoA binding pocket [chemical binding]; other site 522306003905 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 522306003906 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 522306003907 substrate binding site [chemical binding]; other site 522306003908 oxyanion hole (OAH) forming residues; other site 522306003909 trimer interface [polypeptide binding]; other site 522306003910 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 522306003911 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 522306003912 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 522306003913 putative active site [active] 522306003914 catalytic triad [active] 522306003915 putative dimer interface [polypeptide binding]; other site 522306003916 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 522306003917 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 522306003918 Transporter associated domain; Region: CorC_HlyC; cl08393 522306003919 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 522306003920 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 522306003921 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306003922 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 522306003923 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 522306003924 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 522306003925 FeS/SAM binding site; other site 522306003926 TRAM domain; Region: TRAM; cl01282 522306003927 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 522306003928 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 522306003929 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306003930 ligand binding site [chemical binding]; other site 522306003931 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 522306003932 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 522306003933 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 522306003934 putative active site [active] 522306003935 catalytic site [active] 522306003936 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 522306003937 putative active site [active] 522306003938 catalytic site [active] 522306003939 MarC family integral membrane protein; Region: MarC; cl00919 522306003940 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 522306003941 Sulfatase; Region: Sulfatase; cl10460 522306003942 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 522306003943 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 522306003944 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 522306003945 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 522306003946 S-adenosylmethionine binding site [chemical binding]; other site 522306003947 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 522306003948 Helix-turn-helix domains; Region: HTH; cl00088 522306003949 LysE type translocator; Region: LysE; cl00565 522306003950 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 522306003951 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522306003952 catalytic residue [active] 522306003953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306003954 active site 522306003955 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 522306003956 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306003957 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306003958 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 522306003959 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 522306003960 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 522306003961 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 522306003962 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 522306003963 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 522306003964 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 522306003965 HEAT repeats; Region: HEAT_2; pfam13646 522306003966 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306003967 binding surface 522306003968 Tetratricopeptide repeat; Region: TPR_16; pfam13432 522306003969 TPR motif; other site 522306003970 Tetratricopeptide repeat; Region: TPR_16; pfam13432 522306003971 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306003972 TPR motif; other site 522306003973 binding surface 522306003974 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 522306003975 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 522306003976 AAA domain; Region: AAA_22; pfam13401 522306003977 Walker A motif; other site 522306003978 ATP binding site [chemical binding]; other site 522306003979 Walker B motif; other site 522306003980 arginine finger; other site 522306003981 Helix-turn-helix domains; Region: HTH; cl00088 522306003982 Integrase core domain; Region: rve; cl01316 522306003983 Integrase core domain; Region: rve_3; cl15866 522306003984 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 522306003985 PPIC-type PPIASE domain; Region: Rotamase; cl08278 522306003986 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 522306003987 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 522306003988 Helix-turn-helix domains; Region: HTH; cl00088 522306003989 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_GTP; cd00819 522306003990 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 522306003991 active site 522306003992 substrate-binding site [chemical binding]; other site 522306003993 metal-binding site [ion binding] 522306003994 GTP binding site [chemical binding]; other site 522306003995 malate dehydrogenase; Reviewed; Region: PRK06223 522306003996 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 522306003997 NAD(P) binding site [chemical binding]; other site 522306003998 dimer interface [polypeptide binding]; other site 522306003999 tetramer (dimer of dimers) interface [polypeptide binding]; other site 522306004000 substrate binding site [chemical binding]; other site 522306004001 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 522306004002 active site clefts [active] 522306004003 zinc binding site [ion binding]; other site 522306004004 dimer interface [polypeptide binding]; other site 522306004005 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 522306004006 catalytic core [active] 522306004007 RES domain; Region: RES; cl02411 522306004008 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 522306004009 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 522306004010 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 522306004011 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306004012 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 522306004013 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306004014 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 522306004015 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 522306004016 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 522306004017 Sulfatase; Region: Sulfatase; cl10460 522306004018 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306004019 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 522306004020 Sulfatase; Region: Sulfatase; cl10460 522306004021 Sulfatase; Region: Sulfatase; cl10460 522306004022 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 522306004023 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 522306004024 active site 522306004025 phosphorylation site [posttranslational modification] 522306004026 intermolecular recognition site; other site 522306004027 dimerization interface [polypeptide binding]; other site 522306004028 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522306004029 dimerization interface [polypeptide binding]; other site 522306004030 DNA binding residues [nucleotide binding] 522306004031 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 522306004032 PAS fold; Region: PAS_3; pfam08447 522306004033 putative active site [active] 522306004034 heme pocket [chemical binding]; other site 522306004035 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522306004036 dimer interface [polypeptide binding]; other site 522306004037 phosphorylation site [posttranslational modification] 522306004038 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 522306004039 ATP binding site [chemical binding]; other site 522306004040 G-X-G motif; other site 522306004041 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 522306004042 Response regulator receiver domain; Region: Response_reg; pfam00072 522306004043 active site 522306004044 phosphorylation site [posttranslational modification] 522306004045 intermolecular recognition site; other site 522306004046 dimerization interface [polypeptide binding]; other site 522306004047 Family of unknown function (DUF500); Region: DUF500; cl01109 522306004048 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 522306004049 nucleophile elbow; other site 522306004050 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 522306004051 Surface antigen; Region: Bac_surface_Ag; cl03097 522306004052 Phosphate-starvation-inducible E; Region: PsiE; cl01264 522306004053 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 522306004054 tellurite resistance protein terB; Region: terB; cd07176 522306004055 putative metal binding site [ion binding]; other site 522306004056 HipA N-terminal domain; Region: Couple_hipA; cl11853 522306004057 HipA-like N-terminal domain; Region: HipA_N; pfam07805 522306004058 HipA-like C-terminal domain; Region: HipA_C; pfam07804 522306004059 Protein of unknown function DUF262; Region: DUF262; cl14890 522306004060 RES domain; Region: RES; cl02411 522306004061 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 522306004062 heme bH binding site [chemical binding]; other site 522306004063 intrachain domain interface; other site 522306004064 heme bL binding site [chemical binding]; other site 522306004065 interchain domain interface [polypeptide binding]; other site 522306004066 Qo binding site; other site 522306004067 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 522306004068 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 522306004069 catalytic loop [active] 522306004070 iron binding site [ion binding]; other site 522306004071 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 522306004072 FAD binding pocket [chemical binding]; other site 522306004073 FAD binding motif [chemical binding]; other site 522306004074 phosphate binding motif [ion binding]; other site 522306004075 beta-alpha-beta structure motif; other site 522306004076 NAD binding pocket [chemical binding]; other site 522306004077 Domain of unknown function DUF29; Region: DUF29; pfam01724 522306004078 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 522306004079 heme bH binding site [chemical binding]; other site 522306004080 intrachain domain interface; other site 522306004081 heme bL binding site [chemical binding]; other site 522306004082 interchain domain interface [polypeptide binding]; other site 522306004083 Qo binding site; other site 522306004084 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 522306004085 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 522306004086 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 522306004087 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 522306004088 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 522306004089 Walker A/P-loop; other site 522306004090 ATP binding site [chemical binding]; other site 522306004091 Q-loop/lid; other site 522306004092 ABC transporter signature motif; other site 522306004093 Walker B; other site 522306004094 D-loop; other site 522306004095 H-loop/switch region; other site 522306004096 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 522306004097 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306004098 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 522306004099 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 522306004100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306004101 NAD(P) binding site [chemical binding]; other site 522306004102 active site 522306004103 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 522306004104 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306004105 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306004106 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 bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 522306004107 putative active site [active] 522306004108 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 522306004109 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 522306004110 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306004111 Walker A/P-loop; other site 522306004112 ATP binding site [chemical binding]; other site 522306004113 Q-loop/lid; other site 522306004114 ABC transporter signature motif; other site 522306004115 Walker B; other site 522306004116 D-loop; other site 522306004117 H-loop/switch region; other site 522306004118 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 522306004119 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 522306004120 active site 522306004121 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 522306004122 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306004123 Walker A motif; other site 522306004124 ATP binding site [chemical binding]; other site 522306004125 Walker B motif; other site 522306004126 arginine finger; other site 522306004127 Helix-turn-helix domains; Region: HTH; cl00088 522306004128 Integrase core domain; Region: rve; cl01316 522306004129 Integrase core domain; Region: rve_3; cl15866 522306004130 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 522306004131 Protein of unknown function (DUF563); Region: DUF563; cl15705 522306004132 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 522306004133 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 522306004134 inhibitor-cofactor binding pocket; inhibition site 522306004135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306004136 catalytic residue [active] 522306004137 Cupin domain; Region: Cupin_2; cl09118 522306004138 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 522306004139 active site 522306004140 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 522306004141 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306004142 binding surface 522306004143 TPR motif; other site 522306004144 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 522306004145 Flagellar protein FliS; Region: FliS; cl00654 522306004146 flagellar capping protein; Reviewed; Region: fliD; PRK08032 522306004147 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 522306004148 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 522306004149 FlaG protein; Region: FlaG; cl00591 522306004150 flagellin; Provisional; Region: PRK12806 522306004151 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 522306004152 flagellin; Provisional; Region: PRK12806 522306004153 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 522306004154 Survival protein SurE; Region: SurE; cl00448 522306004155 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 522306004156 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 522306004157 S-adenosylmethionine binding site [chemical binding]; other site 522306004158 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 522306004159 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 522306004160 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 522306004161 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 522306004162 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 522306004163 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522306004164 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 522306004165 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 522306004166 DNA binding residues [nucleotide binding] 522306004167 Transglycosylase SLT domain; Region: SLT_2; pfam13406 522306004168 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 522306004169 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522306004170 catalytic residue [active] 522306004171 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 522306004172 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 522306004173 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 522306004174 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 522306004175 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 522306004176 MoxR-like ATPases [General function prediction only]; Region: COG0714 522306004177 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 522306004178 Walker A motif; other site 522306004179 ATP binding site [chemical binding]; other site 522306004180 Walker B motif; other site 522306004181 arginine finger; other site 522306004182 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 522306004183 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 522306004184 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 522306004185 dihydrodipicolinate synthase; Region: dapA; TIGR00674 522306004186 dimer interface [polypeptide binding]; other site 522306004187 active site 522306004188 catalytic residue [active] 522306004189 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 522306004190 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 522306004191 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306004192 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 522306004193 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 522306004194 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 522306004195 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 522306004196 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 522306004197 putative dimer interface [polypeptide binding]; other site 522306004198 active site pocket [active] 522306004199 putative cataytic base [active] 522306004200 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 522306004201 homotrimer interface [polypeptide binding]; other site 522306004202 Walker A motif; other site 522306004203 GTP binding site [chemical binding]; other site 522306004204 Walker B motif; other site 522306004205 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 522306004206 Ligand Binding Site [chemical binding]; other site 522306004207 cobyric acid synthase; Provisional; Region: PRK00784 522306004208 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306004209 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306004210 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 522306004211 catalytic triad [active] 522306004212 CobD/Cbib protein; Region: CobD_Cbib; cl00561 522306004213 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 522306004214 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 522306004215 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306004216 catalytic residue [active] 522306004217 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 522306004218 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 522306004219 cobalamin binding residues [chemical binding]; other site 522306004220 putative BtuC binding residues; other site 522306004221 dimer interface [polypeptide binding]; other site 522306004222 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 522306004223 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 522306004224 Ligand binding site; other site 522306004225 Putative Catalytic site; other site 522306004226 DXD motif; other site 522306004227 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 522306004228 GtrA-like protein; Region: GtrA; cl00971 522306004229 YdjC-like protein; Region: YdjC; cl01344 522306004230 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 522306004231 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 522306004232 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 522306004233 active site 522306004234 motif I; other site 522306004235 motif II; other site 522306004236 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306004237 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 522306004238 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 522306004239 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 522306004240 Zeta toxin; Region: Zeta_toxin; pfam06414 522306004241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306004242 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 522306004243 active site 522306004244 zinc binding site [ion binding]; other site 522306004245 glutathione S-transferase; Provisional; Region: PRK15113 522306004246 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 522306004247 C-terminal domain interface [polypeptide binding]; other site 522306004248 GSH binding site (G-site) [chemical binding]; other site 522306004249 dimer interface [polypeptide binding]; other site 522306004250 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 522306004251 N-terminal domain interface [polypeptide binding]; other site 522306004252 putative dimer interface [polypeptide binding]; other site 522306004253 putative substrate binding pocket (H-site) [chemical binding]; other site 522306004254 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 522306004255 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 522306004256 Walker A motif; other site 522306004257 ATP binding site [chemical binding]; other site 522306004258 Walker B motif; other site 522306004259 arginine finger; other site 522306004260 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 522306004261 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 522306004262 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 522306004263 Walker A/P-loop; other site 522306004264 ATP binding site [chemical binding]; other site 522306004265 Q-loop/lid; other site 522306004266 ABC transporter signature motif; other site 522306004267 Walker B; other site 522306004268 D-loop; other site 522306004269 H-loop/switch region; other site 522306004270 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 522306004271 dimer interface [polypeptide binding]; other site 522306004272 conserved gate region; other site 522306004273 putative PBP binding loops; other site 522306004274 ABC-ATPase subunit interface; other site 522306004275 NMT1-like family; Region: NMT1_2; cl15260 522306004276 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306004277 ligand binding site [chemical binding]; other site 522306004278 hypothetical protein; Validated; Region: PRK09039 522306004279 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 522306004280 structural tetrad; other site 522306004281 VID27 cytoplasmic protein; Region: VID27; pfam08553 522306004282 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306004283 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 522306004284 ligand binding site [chemical binding]; other site 522306004285 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 522306004286 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 522306004287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306004288 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 522306004289 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 522306004290 SLBB domain; Region: SLBB; pfam10531 522306004291 Chain length determinant protein; Region: Wzz; cl15801 522306004292 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 522306004293 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 522306004294 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306004295 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 522306004296 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 522306004297 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 522306004298 Walker A motif; other site 522306004299 ATP binding site [chemical binding]; other site 522306004300 Walker B motif; other site 522306004301 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 522306004302 active site 522306004303 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 522306004304 homodimer interface [polypeptide binding]; other site 522306004305 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 522306004306 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 522306004307 putative active site [active] 522306004308 putative catalytic site [active] 522306004309 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306004310 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 522306004311 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 522306004312 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 522306004313 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 522306004314 putative active site [active] 522306004315 putative cosubstrate binding site; other site 522306004316 putative substrate binding site [chemical binding]; other site 522306004317 catalytic site [active] 522306004318 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 522306004319 putative active site [active] 522306004320 putative metal binding site [ion binding]; other site 522306004321 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 522306004322 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 522306004323 putative ADP-binding pocket [chemical binding]; other site 522306004324 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 522306004325 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 522306004326 active site 522306004327 dimer interface [polypeptide binding]; other site 522306004328 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 522306004329 Ligand Binding Site [chemical binding]; other site 522306004330 Molecular Tunnel; other site 522306004331 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 522306004332 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 522306004333 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 522306004334 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 522306004335 active site 522306004336 dimer interface [polypeptide binding]; other site 522306004337 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 522306004338 Ligand Binding Site [chemical binding]; other site 522306004339 Molecular Tunnel; other site 522306004340 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 522306004341 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 522306004342 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 522306004343 Uncharacterized protein family UPF0546; Region: UPF0546; pfam10639 522306004344 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 522306004345 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 522306004346 Ligand binding site; other site 522306004347 Putative Catalytic site; other site 522306004348 DXD motif; other site 522306004349 DDE superfamily endonuclease; Region: DDE_5; cl02413 522306004350 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 522306004351 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 522306004352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306004353 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 522306004354 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522306004355 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 522306004356 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 522306004357 S-adenosylmethionine binding site [chemical binding]; other site 522306004358 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 522306004359 AMP-binding enzyme; Region: AMP-binding; cl15778 522306004360 O-Antigen ligase; Region: Wzy_C; cl04850 522306004361 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 522306004362 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306004363 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 522306004364 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 522306004365 putative active site [active] 522306004366 putative metal binding site [ion binding]; other site 522306004367 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 522306004368 AAA domain; Region: AAA_22; pfam13401 522306004369 Walker A motif; other site 522306004370 ATP binding site [chemical binding]; other site 522306004371 Walker B motif; other site 522306004372 arginine finger; other site 522306004373 Helix-turn-helix domains; Region: HTH; cl00088 522306004374 Integrase core domain; Region: rve; cl01316 522306004375 Integrase core domain; Region: rve_3; cl15866 522306004376 transposase/IS protein; Provisional; Region: PRK09183 522306004377 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 522306004378 Walker A motif; other site 522306004379 ATP binding site [chemical binding]; other site 522306004380 Walker B motif; other site 522306004381 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306004382 Helix-turn-helix domains; Region: HTH; cl00088 522306004383 Integrase core domain; Region: rve; cl01316 522306004384 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306004385 Integrase core domain; Region: rve; cl01316 522306004386 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522306004387 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 522306004388 Walker A motif; other site 522306004389 ATP binding site [chemical binding]; other site 522306004390 Walker B motif; other site 522306004391 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 522306004392 ParB-like nuclease domain; Region: ParBc; cl02129 522306004393 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 522306004394 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 522306004395 Walker A motif; other site 522306004396 ATP binding site [chemical binding]; other site 522306004397 Walker B motif; other site 522306004398 arginine finger; other site 522306004399 Helix-turn-helix domains; Region: HTH; cl00088 522306004400 Winged helix-turn helix; Region: HTH_29; pfam13551 522306004401 Integrase core domain; Region: rve; cl01316 522306004402 Transposase; Region: DEDD_Tnp_IS110; pfam01548 522306004403 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 522306004404 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 522306004405 Transposase [DNA replication, recombination, and repair]; Region: COG5433 522306004406 Transposase [DNA replication, recombination, and repair]; Region: COG5433 522306004407 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 522306004408 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 522306004409 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 522306004410 MatE; Region: MatE; cl10513 522306004411 Helix-turn-helix domains; Region: HTH; cl00088 522306004412 putative transposase OrfB; Reviewed; Region: PHA02517 522306004413 HTH-like domain; Region: HTH_21; pfam13276 522306004414 Integrase core domain; Region: rve; cl01316 522306004415 Integrase core domain; Region: rve_3; cl15866 522306004416 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 522306004417 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 522306004418 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 522306004419 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306004420 binding surface 522306004421 Tetratricopeptide repeat; Region: TPR_16; pfam13432 522306004422 TPR motif; other site 522306004423 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 522306004424 FAD binding domain; Region: FAD_binding_4; pfam01565 522306004425 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 522306004426 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 522306004427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306004428 NAD(P) binding site [chemical binding]; other site 522306004429 active site 522306004430 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 522306004431 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306004432 UbiA prenyltransferase family; Region: UbiA; cl00337 522306004433 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 522306004434 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 522306004435 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 522306004436 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306004437 metal binding site [ion binding]; metal-binding site 522306004438 active site 522306004439 I-site; other site 522306004440 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 522306004441 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 522306004442 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 522306004443 ligand binding site [chemical binding]; other site 522306004444 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306004445 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306004446 PAS domain; Region: PAS_9; pfam13426 522306004447 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 522306004448 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522306004449 dimer interface [polypeptide binding]; other site 522306004450 phosphorylation site [posttranslational modification] 522306004451 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 522306004452 ATP binding site [chemical binding]; other site 522306004453 Mg2+ binding site [ion binding]; other site 522306004454 G-X-G motif; other site 522306004455 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 522306004456 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306004457 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 522306004458 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 522306004459 ligand binding site [chemical binding]; other site 522306004460 flexible hinge region; other site 522306004461 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 522306004462 N-glycosyltransferase; Provisional; Region: PRK11204 522306004463 EamA-like transporter family; Region: EamA; cl01037 522306004464 EamA-like transporter family; Region: EamA; cl01037 522306004465 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 522306004466 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 522306004467 DNA binding site [nucleotide binding] 522306004468 active site 522306004469 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 522306004470 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 522306004471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522306004472 AlkA N-terminal domain; Region: AlkA_N; cl05528 522306004473 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 522306004474 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 522306004475 minor groove reading motif; other site 522306004476 helix-hairpin-helix signature motif; other site 522306004477 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 522306004478 metal-binding site [ion binding] 522306004479 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 522306004480 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522306004481 catalytic residue [active] 522306004482 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522306004483 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 522306004484 substrate binding pocket [chemical binding]; other site 522306004485 membrane-bound complex binding site; other site 522306004486 hinge residues; other site 522306004487 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 522306004488 dimer interface [polypeptide binding]; other site 522306004489 conserved gate region; other site 522306004490 putative PBP binding loops; other site 522306004491 ABC-ATPase subunit interface; other site 522306004492 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 522306004493 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 522306004494 Walker A/P-loop; other site 522306004495 ATP binding site [chemical binding]; other site 522306004496 Q-loop/lid; other site 522306004497 ABC transporter signature motif; other site 522306004498 Walker B; other site 522306004499 D-loop; other site 522306004500 H-loop/switch region; other site 522306004501 EamA-like transporter family; Region: EamA; cl01037 522306004502 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 522306004503 EamA-like transporter family; Region: EamA; cl01037 522306004504 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 522306004505 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306004506 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306004507 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306004508 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306004509 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306004510 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306004511 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306004512 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306004513 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306004514 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 522306004515 Cadherin repeat-like domain; Region: CA_like; cl15786 522306004516 Ca2+ binding site [ion binding]; other site 522306004517 Cadherin repeat-like domain; Region: CA_like; cl15786 522306004518 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306004519 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306004520 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 522306004521 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 522306004522 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 522306004523 dimer interface [polypeptide binding]; other site 522306004524 glycine-pyridoxal phosphate binding site [chemical binding]; other site 522306004525 active site 522306004526 folate binding site [chemical binding]; other site 522306004527 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 522306004528 ATP cone domain; Region: ATP-cone; pfam03477 522306004529 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 522306004530 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 522306004531 catalytic motif [active] 522306004532 Zn binding site [ion binding]; other site 522306004533 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 522306004534 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 522306004535 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 522306004536 ATP binding site [chemical binding]; other site 522306004537 substrate interface [chemical binding]; other site 522306004538 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 522306004539 C-terminal peptidase (prc); Region: prc; TIGR00225 522306004540 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 522306004541 protein binding site [polypeptide binding]; other site 522306004542 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 522306004543 Catalytic dyad [active] 522306004544 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 522306004545 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 522306004546 dimerization interface [polypeptide binding]; other site 522306004547 putative DNA binding site [nucleotide binding]; other site 522306004548 putative Zn2+ binding site [ion binding]; other site 522306004549 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 522306004550 active site residue [active] 522306004551 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 522306004552 GSH binding site [chemical binding]; other site 522306004553 catalytic residues [active] 522306004554 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 522306004555 SecA binding site; other site 522306004556 Preprotein binding site; other site 522306004557 Bacterial SH3 domain; Region: SH3_3; cl02551 522306004558 Bacterial SH3 domain; Region: SH3_3; cl02551 522306004559 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 522306004560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306004561 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 522306004562 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 522306004563 Family of unknown function (DUF500); Region: DUF500; cl01109 522306004564 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 522306004565 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 522306004566 dimer interaction site [polypeptide binding]; other site 522306004567 substrate-binding tunnel; other site 522306004568 active site 522306004569 catalytic site [active] 522306004570 substrate binding site [chemical binding]; other site 522306004571 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 522306004572 Acetokinase family; Region: Acetate_kinase; cl01029 522306004573 propionate/acetate kinase; Provisional; Region: PRK12379 522306004574 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 522306004575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306004576 NAD(P) binding site [chemical binding]; other site 522306004577 active site 522306004578 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 522306004579 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 522306004580 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 522306004581 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 522306004582 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306004583 high affinity sulphate transporter 1; Region: sulP; TIGR00815 522306004584 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306004585 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 522306004586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306004587 active site 522306004588 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 522306004589 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 522306004590 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306004591 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306004592 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306004593 ribonuclease E; Reviewed; Region: rne; PRK10811 522306004594 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 522306004595 homodimer interface [polypeptide binding]; other site 522306004596 oligonucleotide binding site [chemical binding]; other site 522306004597 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 522306004598 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 522306004599 RNA binding surface [nucleotide binding]; other site 522306004600 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 522306004601 active site 522306004602 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 522306004603 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 522306004604 motif II; other site 522306004605 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 522306004606 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 522306004607 tandem repeat interface [polypeptide binding]; other site 522306004608 oligomer interface [polypeptide binding]; other site 522306004609 active site residues [active] 522306004610 Predicted methyltransferases [General function prediction only]; Region: COG0313 522306004611 Maf-like protein; Region: Maf; pfam02545 522306004612 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 522306004613 active site 522306004614 dimer interface [polypeptide binding]; other site 522306004615 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 522306004616 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 522306004617 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 522306004618 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 522306004619 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 522306004620 dimer interface [polypeptide binding]; other site 522306004621 active site 522306004622 CoA binding pocket [chemical binding]; other site 522306004623 Acyl transferase domain; Region: Acyl_transf_1; cl08282 522306004624 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 522306004625 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 522306004626 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 522306004627 NAD(P) binding site [chemical binding]; other site 522306004628 homotetramer interface [polypeptide binding]; other site 522306004629 homodimer interface [polypeptide binding]; other site 522306004630 active site 522306004631 Phosphopantetheine attachment site; Region: PP-binding; cl09936 522306004632 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 522306004633 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 522306004634 dimer interface [polypeptide binding]; other site 522306004635 active site 522306004636 L-aspartate oxidase; Provisional; Region: PRK09077 522306004637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306004638 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 522306004639 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 522306004640 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522306004641 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 522306004642 DNA binding residues [nucleotide binding] 522306004643 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 522306004644 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 522306004645 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 522306004646 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 522306004647 protein binding site [polypeptide binding]; other site 522306004648 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 522306004649 protein binding site [polypeptide binding]; other site 522306004650 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 522306004651 GTP-binding protein LepA; Provisional; Region: PRK05433 522306004652 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 522306004653 G1 box; other site 522306004654 putative GEF interaction site [polypeptide binding]; other site 522306004655 GTP/Mg2+ binding site [chemical binding]; other site 522306004656 Switch I region; other site 522306004657 G2 box; other site 522306004658 G3 box; other site 522306004659 Switch II region; other site 522306004660 G4 box; other site 522306004661 G5 box; other site 522306004662 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 522306004663 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 522306004664 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 522306004665 signal peptidase I; Provisional; Region: PRK10861 522306004666 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 522306004667 Catalytic site [active] 522306004668 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 522306004669 ribonuclease III; Reviewed; Region: rnc; PRK00102 522306004670 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 522306004671 dimerization interface [polypeptide binding]; other site 522306004672 active site 522306004673 metal binding site [ion binding]; metal-binding site 522306004674 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 522306004675 dsRNA binding site [nucleotide binding]; other site 522306004676 GTPase Era; Reviewed; Region: era; PRK00089 522306004677 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 522306004678 G1 box; other site 522306004679 GTP/Mg2+ binding site [chemical binding]; other site 522306004680 Switch I region; other site 522306004681 G2 box; other site 522306004682 Switch II region; other site 522306004683 G3 box; other site 522306004684 G4 box; other site 522306004685 G5 box; other site 522306004686 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 522306004687 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 522306004688 Recombination protein O N terminal; Region: RecO_N; cl15812 522306004689 Recombination protein O C terminal; Region: RecO_C; pfam02565 522306004690 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 522306004691 active site 522306004692 hydrophilic channel; other site 522306004693 dimerization interface [polypeptide binding]; other site 522306004694 catalytic residues [active] 522306004695 active site lid [active] 522306004696 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 522306004697 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 522306004698 elongation factor P; Validated; Region: PRK00529 522306004699 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 522306004700 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 522306004701 RNA binding site [nucleotide binding]; other site 522306004702 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 522306004703 RNA binding site [nucleotide binding]; other site 522306004704 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 522306004705 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 522306004706 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 522306004707 GIY-YIG motif/motif A; other site 522306004708 active site 522306004709 catalytic site [active] 522306004710 putative DNA binding site [nucleotide binding]; other site 522306004711 metal binding site [ion binding]; metal-binding site 522306004712 UvrB/uvrC motif; Region: UVR; pfam02151 522306004713 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 522306004714 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 522306004715 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 522306004716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 522306004717 Helix-turn-helix domains; Region: HTH; cl00088 522306004718 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 522306004719 putative effector binding pocket; other site 522306004720 dimerization interface [polypeptide binding]; other site 522306004721 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 522306004722 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 522306004723 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 522306004724 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 522306004725 CAAX protease self-immunity; Region: Abi; cl00558 522306004726 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 522306004727 Zn binding site [ion binding]; other site 522306004728 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 522306004729 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 522306004730 putative active site [active] 522306004731 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 522306004732 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 522306004733 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 522306004734 ATP binding site [chemical binding]; other site 522306004735 putative Mg++ binding site [ion binding]; other site 522306004736 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 522306004737 nucleotide binding region [chemical binding]; other site 522306004738 ATP-binding site [chemical binding]; other site 522306004739 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 522306004740 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 522306004741 putative dimer interface [polypeptide binding]; other site 522306004742 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 522306004743 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 522306004744 putative dimer interface [polypeptide binding]; other site 522306004745 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 522306004746 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 522306004747 HSP70 interaction site [polypeptide binding]; other site 522306004748 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 522306004749 substrate binding site [polypeptide binding]; other site 522306004750 dimer interface [polypeptide binding]; other site 522306004751 Peptidase family M48; Region: Peptidase_M48; cl12018 522306004752 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 522306004753 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 522306004754 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 522306004755 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 522306004756 AMP-binding enzyme; Region: AMP-binding; cl15778 522306004757 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 522306004758 classical (c) SDRs; Region: SDR_c; cd05233 522306004759 NAD(P) binding site [chemical binding]; other site 522306004760 active site 522306004761 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 522306004762 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306004763 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 522306004764 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 522306004765 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 522306004766 active site 522306004767 catalytic site [active] 522306004768 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 522306004769 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 522306004770 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 522306004771 catalytic site [active] 522306004772 active site 522306004773 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 522306004774 Flagellar regulator YcgR; Region: YcgR; pfam07317 522306004775 PilZ domain; Region: PilZ; cl01260 522306004776 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 522306004777 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 522306004778 selenophosphate synthetase; Provisional; Region: PRK00943 522306004779 dimerization interface [polypeptide binding]; other site 522306004780 putative ATP binding site [chemical binding]; other site 522306004781 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 522306004782 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 522306004783 ATP binding site [chemical binding]; other site 522306004784 Mg2+ binding site [ion binding]; other site 522306004785 G-X-G motif; other site 522306004786 osmolarity response regulator; Provisional; Region: ompR; PRK09468 522306004787 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 522306004788 active site 522306004789 phosphorylation site [posttranslational modification] 522306004790 intermolecular recognition site; other site 522306004791 dimerization interface [polypeptide binding]; other site 522306004792 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 522306004793 DNA binding site [nucleotide binding] 522306004794 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 522306004795 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 522306004796 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 522306004797 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 522306004798 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 522306004799 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 522306004800 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 522306004801 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 522306004802 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 522306004803 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 522306004804 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306004805 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 522306004806 active site 522306004807 zinc binding site [ion binding]; other site 522306004808 Sodium:solute symporter family; Region: SSF; cl00456 522306004809 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 522306004810 Protein of unknown function, DUF485; Region: DUF485; cl01231 522306004811 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 522306004812 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 522306004813 ligand binding site [chemical binding]; other site 522306004814 flexible hinge region; other site 522306004815 Helix-turn-helix domains; Region: HTH; cl00088 522306004816 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 522306004817 AMP-binding enzyme; Region: AMP-binding; cl15778 522306004818 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 522306004819 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 522306004820 Walker A/P-loop; other site 522306004821 ATP binding site [chemical binding]; other site 522306004822 Q-loop/lid; other site 522306004823 ABC transporter signature motif; other site 522306004824 Walker B; other site 522306004825 D-loop; other site 522306004826 H-loop/switch region; other site 522306004827 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 522306004828 TM-ABC transporter signature motif; other site 522306004829 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 522306004830 TM-ABC transporter signature motif; other site 522306004831 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 522306004832 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 522306004833 putative ligand binding site [chemical binding]; other site 522306004834 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 522306004835 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 522306004836 Walker A/P-loop; other site 522306004837 ATP binding site [chemical binding]; other site 522306004838 Q-loop/lid; other site 522306004839 ABC transporter signature motif; other site 522306004840 Walker B; other site 522306004841 D-loop; other site 522306004842 H-loop/switch region; other site 522306004843 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 522306004844 CoA-transferase family III; Region: CoA_transf_3; pfam02515 522306004845 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 522306004846 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 522306004847 putative NAD(P) binding site [chemical binding]; other site 522306004848 Transcriptional regulator [Transcription]; Region: LysR; COG0583 522306004849 Helix-turn-helix domains; Region: HTH; cl00088 522306004850 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 522306004851 putative dimerization interface [polypeptide binding]; other site 522306004852 EamA-like transporter family; Region: EamA; cl01037 522306004853 EamA-like transporter family; Region: EamA; cl01037 522306004854 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306004855 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306004856 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 522306004857 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306004858 catalytic residue [active] 522306004859 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 522306004860 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 522306004861 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 522306004862 dimer interface [polypeptide binding]; other site 522306004863 active site 522306004864 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 522306004865 catalytic residues [active] 522306004866 substrate binding site [chemical binding]; other site 522306004867 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 522306004868 AMP-binding enzyme; Region: AMP-binding; cl15778 522306004869 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 522306004870 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 522306004871 Ligand Binding Site [chemical binding]; other site 522306004872 Molecular Tunnel; other site 522306004873 Response regulator receiver domain; Region: Response_reg; pfam00072 522306004874 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 522306004875 active site 522306004876 phosphorylation site [posttranslational modification] 522306004877 intermolecular recognition site; other site 522306004878 dimerization interface [polypeptide binding]; other site 522306004879 PAS domain S-box; Region: sensory_box; TIGR00229 522306004880 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 522306004881 putative active site [active] 522306004882 heme pocket [chemical binding]; other site 522306004883 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306004884 metal binding site [ion binding]; metal-binding site 522306004885 active site 522306004886 I-site; other site 522306004887 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 522306004888 HDOD domain; Region: HDOD; pfam08668 522306004889 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306004890 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 522306004891 dimer interface [polypeptide binding]; other site 522306004892 phosphorylation site [posttranslational modification] 522306004893 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 522306004894 ATP binding site [chemical binding]; other site 522306004895 Mg2+ binding site [ion binding]; other site 522306004896 G-X-G motif; other site 522306004897 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306004898 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522306004899 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 522306004900 Walker A/P-loop; other site 522306004901 ATP binding site [chemical binding]; other site 522306004902 Q-loop/lid; other site 522306004903 ABC transporter signature motif; other site 522306004904 Walker B; other site 522306004905 D-loop; other site 522306004906 H-loop/switch region; other site 522306004907 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 522306004908 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 522306004909 putative NAD(P) binding site [chemical binding]; other site 522306004910 putative substrate binding site [chemical binding]; other site 522306004911 catalytic Zn binding site [ion binding]; other site 522306004912 structural Zn binding site [ion binding]; other site 522306004913 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 522306004914 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306004915 Walker A/P-loop; other site 522306004916 ATP binding site [chemical binding]; other site 522306004917 Q-loop/lid; other site 522306004918 ABC transporter signature motif; other site 522306004919 Walker B; other site 522306004920 D-loop; other site 522306004921 H-loop/switch region; other site 522306004922 TOBE domain; Region: TOBE_2; cl01440 522306004923 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 522306004924 dimer interface [polypeptide binding]; other site 522306004925 conserved gate region; other site 522306004926 putative PBP binding loops; other site 522306004927 ABC-ATPase subunit interface; other site 522306004928 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 522306004929 dimer interface [polypeptide binding]; other site 522306004930 conserved gate region; other site 522306004931 putative PBP binding loops; other site 522306004932 ABC-ATPase subunit interface; other site 522306004933 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 522306004934 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306004935 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 522306004936 putative active site [active] 522306004937 Transposase; Region: DEDD_Tnp_IS110; pfam01548 522306004938 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 522306004939 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306004940 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522306004941 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 522306004942 Walker A/P-loop; other site 522306004943 ATP binding site [chemical binding]; other site 522306004944 Q-loop/lid; other site 522306004945 ABC transporter signature motif; other site 522306004946 Walker B; other site 522306004947 D-loop; other site 522306004948 H-loop/switch region; other site 522306004949 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522306004950 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 522306004951 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522306004952 FtsX-like permease family; Region: FtsX; cl15850 522306004953 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 522306004954 putative catalytic residue [active] 522306004955 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 522306004956 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 522306004957 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 522306004958 DsbD alpha interface [polypeptide binding]; other site 522306004959 catalytic residues [active] 522306004960 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 522306004961 active site 522306004962 NTP binding site [chemical binding]; other site 522306004963 metal binding triad [ion binding]; metal-binding site 522306004964 antibiotic binding site [chemical binding]; other site 522306004965 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 522306004966 catalytic residues [active] 522306004967 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 522306004968 Phage Tail Collar Domain; Region: Collar; pfam07484 522306004969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306004970 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 522306004971 putative deacylase active site [active] 522306004972 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 522306004973 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 522306004974 active site 522306004975 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 522306004976 CoA-transferase family III; Region: CoA_transf_3; pfam02515 522306004977 Fic/DOC family; Region: Fic; cl00960 522306004978 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 522306004979 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 522306004980 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 522306004981 Helix-turn-helix domains; Region: HTH; cl00088 522306004982 Integrase core domain; Region: rve; cl01316 522306004983 Integrase core domain; Region: rve_3; cl15866 522306004984 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 522306004985 AAA domain; Region: AAA_22; pfam13401 522306004986 Walker A motif; other site 522306004987 ATP binding site [chemical binding]; other site 522306004988 Walker B motif; other site 522306004989 arginine finger; other site 522306004990 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 522306004991 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 522306004992 Walker A motif; other site 522306004993 ATP binding site [chemical binding]; other site 522306004994 Walker B motif; other site 522306004995 arginine finger; other site 522306004996 Helix-turn-helix domains; Region: HTH; cl00088 522306004997 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 522306004998 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 522306004999 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 522306005000 [2Fe-2S] cluster binding site [ion binding]; other site 522306005001 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; cd00562 522306005002 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306005003 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 522306005004 ATP binding site [chemical binding]; other site 522306005005 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 522306005006 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 522306005007 active site 522306005008 phosphorylation site [posttranslational modification] 522306005009 intermolecular recognition site; other site 522306005010 dimerization interface [polypeptide binding]; other site 522306005011 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 522306005012 DNA binding site [nucleotide binding] 522306005013 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 522306005014 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522306005015 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 522306005016 dimer interface [polypeptide binding]; other site 522306005017 phosphorylation site [posttranslational modification] 522306005018 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 522306005019 ATP binding site [chemical binding]; other site 522306005020 Mg2+ binding site [ion binding]; other site 522306005021 G-X-G motif; other site 522306005022 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 522306005023 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 522306005024 active site 522306005025 phosphorylation site [posttranslational modification] 522306005026 intermolecular recognition site; other site 522306005027 dimerization interface [polypeptide binding]; other site 522306005028 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 522306005029 DNA binding site [nucleotide binding] 522306005030 potassium uptake protein; Region: kup; TIGR00794 522306005031 K+ potassium transporter; Region: K_trans; cl15781 522306005032 sensor protein KdpD; Provisional; Region: PRK10490 522306005033 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 522306005034 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 522306005035 Ligand Binding Site [chemical binding]; other site 522306005036 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 522306005037 GAF domain; Region: GAF; cl15785 522306005038 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 522306005039 dimer interface [polypeptide binding]; other site 522306005040 phosphorylation site [posttranslational modification] 522306005041 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 522306005042 ATP binding site [chemical binding]; other site 522306005043 Mg2+ binding site [ion binding]; other site 522306005044 G-X-G motif; other site 522306005045 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 522306005046 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 522306005047 K+-transporting ATPase, c chain; Region: KdpC; cl00944 522306005048 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 522306005049 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306005050 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 522306005051 TGF-beta propeptide; Region: TGFb_propeptide; pfam00688 522306005052 LysE type translocator; Region: LysE; cl00565 522306005053 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 522306005054 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306005055 Walker A/P-loop; other site 522306005056 ATP binding site [chemical binding]; other site 522306005057 Q-loop/lid; other site 522306005058 ABC transporter signature motif; other site 522306005059 Walker B; other site 522306005060 D-loop; other site 522306005061 H-loop/switch region; other site 522306005062 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 522306005063 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 522306005064 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 522306005065 NMT1-like family; Region: NMT1_2; cl15260 522306005066 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 522306005067 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 522306005068 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306005069 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522306005070 Helix-turn-helix domains; Region: HTH; cl00088 522306005071 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 522306005072 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 522306005073 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306005074 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306005075 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 522306005076 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 522306005077 HDOD domain; Region: HDOD; pfam08668 522306005078 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 522306005079 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 522306005080 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 522306005081 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 522306005082 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 522306005083 phosphate binding site [ion binding]; other site 522306005084 Transposase [DNA replication, recombination, and repair]; Region: COG5421 522306005085 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 522306005086 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 522306005087 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 522306005088 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 522306005089 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 522306005090 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 522306005091 active site 522306005092 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 522306005093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306005094 Integrase core domain; Region: rve; cl01316 522306005095 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522306005096 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 522306005097 Walker A motif; other site 522306005098 ATP binding site [chemical binding]; other site 522306005099 Walker B motif; other site 522306005100 Cupin domain; Region: Cupin_2; cl09118 522306005101 YceI-like domain; Region: YceI; cl01001 522306005102 YceI-like domain; Region: YceI; cl01001 522306005103 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 522306005104 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 522306005105 putative active site [active] 522306005106 metal binding site [ion binding]; metal-binding site 522306005107 Helix-turn-helix domains; Region: HTH; cl00088 522306005108 LysR family transcriptional regulator; Provisional; Region: PRK14997 522306005109 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 522306005110 putative effector binding pocket; other site 522306005111 dimerization interface [polypeptide binding]; other site 522306005112 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 522306005113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 522306005114 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 522306005115 putative active site [active] 522306005116 putative metal binding site [ion binding]; other site 522306005117 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 522306005118 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306005119 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 522306005120 active site residue [active] 522306005121 high affinity sulphate transporter 1; Region: sulP; TIGR00815 522306005122 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306005123 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306005124 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 522306005125 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306005126 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 522306005127 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 522306005128 Walker A motif; other site 522306005129 ATP binding site [chemical binding]; other site 522306005130 Walker B motif; other site 522306005131 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522306005132 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 522306005133 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 522306005134 putative active site [active] 522306005135 putative NTP binding site [chemical binding]; other site 522306005136 putative nucleic acid binding site [nucleotide binding]; other site 522306005137 response regulator FixJ; Provisional; Region: fixJ; PRK09390 522306005138 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 522306005139 active site 522306005140 phosphorylation site [posttranslational modification] 522306005141 intermolecular recognition site; other site 522306005142 dimerization interface [polypeptide binding]; other site 522306005143 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522306005144 DNA binding residues [nucleotide binding] 522306005145 dimerization interface [polypeptide binding]; other site 522306005146 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 522306005147 dimer interface [polypeptide binding]; other site 522306005148 phosphorylation site [posttranslational modification] 522306005149 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 522306005150 ATP binding site [chemical binding]; other site 522306005151 G-X-G motif; other site 522306005152 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306005153 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 522306005154 PhoU domain; Region: PhoU; pfam01895 522306005155 PhoU domain; Region: PhoU; pfam01895 522306005156 Low molecular weight phosphatase family; Region: LMWPc; cl00105 522306005157 active site 522306005158 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 522306005159 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 522306005160 dimer interface [polypeptide binding]; other site 522306005161 conserved gate region; other site 522306005162 putative PBP binding loops; other site 522306005163 ABC-ATPase subunit interface; other site 522306005164 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 522306005165 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 522306005166 dimer interface [polypeptide binding]; other site 522306005167 conserved gate region; other site 522306005168 putative PBP binding loops; other site 522306005169 ABC-ATPase subunit interface; other site 522306005170 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 522306005171 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 522306005172 Walker A/P-loop; other site 522306005173 ATP binding site [chemical binding]; other site 522306005174 Q-loop/lid; other site 522306005175 ABC transporter signature motif; other site 522306005176 Walker B; other site 522306005177 D-loop; other site 522306005178 H-loop/switch region; other site 522306005179 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 522306005180 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 522306005181 Walker A/P-loop; other site 522306005182 ATP binding site [chemical binding]; other site 522306005183 Q-loop/lid; other site 522306005184 ABC transporter signature motif; other site 522306005185 Walker B; other site 522306005186 D-loop; other site 522306005187 H-loop/switch region; other site 522306005188 Ion channel; Region: Ion_trans_2; cl11596 522306005189 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 522306005190 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306005191 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306005192 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 522306005193 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 522306005194 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 522306005195 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 522306005196 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 522306005197 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 522306005198 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 522306005199 Walker A motif; other site 522306005200 ATP binding site [chemical binding]; other site 522306005201 Walker B motif; other site 522306005202 arginine finger; other site 522306005203 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 522306005204 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 522306005205 hypothetical protein; Reviewed; Region: PRK09588 522306005206 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 522306005207 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine residue is found in...; Region: RNA_Cyclase_Class_II; cd00874 522306005208 putative active site [active] 522306005209 adenylation catalytic residue [active] 522306005210 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 522306005211 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 522306005212 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 522306005213 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 522306005214 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 522306005215 oligomeric interface; other site 522306005216 putative active site [active] 522306005217 homodimer interface [polypeptide binding]; other site 522306005218 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306005219 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 522306005220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 522306005221 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 522306005222 Helix-turn-helix domains; Region: HTH; cl00088 522306005223 Integrase core domain; Region: rve; cl01316 522306005224 Integrase core domain; Region: rve_3; cl15866 522306005225 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 522306005226 AAA domain; Region: AAA_22; pfam13401 522306005227 Walker A motif; other site 522306005228 ATP binding site [chemical binding]; other site 522306005229 Walker B motif; other site 522306005230 arginine finger; other site 522306005231 Rhodopirellula transposase DDE domain; Region: DDE_Tnp_ISAZ013; pfam07592 522306005232 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 522306005233 Cu(I) binding site [ion binding]; other site 522306005234 UbiA prenyltransferase family; Region: UbiA; cl00337 522306005235 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 522306005236 D-pathway; other site 522306005237 Low-spin heme binding site [chemical binding]; other site 522306005238 Putative water exit pathway; other site 522306005239 Binuclear center (active site) [active] 522306005240 K-pathway; other site 522306005241 Putative proton exit pathway; other site 522306005242 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 522306005243 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 522306005244 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 522306005245 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 522306005246 Protein of unknown function (DUF461); Region: DUF461; cl01071 522306005247 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 522306005248 Cu(I) binding site [ion binding]; other site 522306005249 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 522306005250 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 522306005251 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306005252 Helix-turn-helix domains; Region: HTH; cl00088 522306005253 Integrase core domain; Region: rve; cl01316 522306005254 transposase/IS protein; Provisional; Region: PRK09183 522306005255 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 522306005256 Walker A motif; other site 522306005257 ATP binding site [chemical binding]; other site 522306005258 Walker B motif; other site 522306005259 FRG domain; Region: FRG; cl07460 522306005260 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 522306005261 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 522306005262 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 522306005263 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 522306005264 dimer interface [polypeptide binding]; other site 522306005265 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 522306005266 metal binding site [ion binding]; metal-binding site 522306005267 integron integrase; Region: integrase_gron; TIGR02249 522306005268 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 522306005269 DNA binding site [nucleotide binding] 522306005270 Int/Topo IB signature motif; other site 522306005271 active site 522306005272 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 522306005273 Putative transposase; Region: Y2_Tnp; pfam04986 522306005274 Helix-turn-helix domains; Region: HTH; cl00088 522306005275 Integrase core domain; Region: rve; cl01316 522306005276 Integrase core domain; Region: rve_3; cl15866 522306005277 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 522306005278 AAA domain; Region: AAA_22; pfam13401 522306005279 Walker A motif; other site 522306005280 ATP binding site [chemical binding]; other site 522306005281 Walker B motif; other site 522306005282 arginine finger; other site 522306005283 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 522306005284 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 522306005285 putative active site [active] 522306005286 putative NTP binding site [chemical binding]; other site 522306005287 putative nucleic acid binding site [nucleotide binding]; other site 522306005288 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 522306005289 integron integrase; Region: integrase_gron; TIGR02249 522306005290 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 522306005291 Int/Topo IB signature motif; other site 522306005292 Surface antigen; Region: Bac_surface_Ag; cl03097 522306005293 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 522306005294 Family of unknown function (DUF490); Region: DUF490; pfam04357 522306005295 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 522306005296 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306005297 substrate pocket [chemical binding]; other site 522306005298 active site 522306005299 proteolytic cleavage site; other site 522306005300 dimer interface [polypeptide binding]; other site 522306005301 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306005302 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 522306005303 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 522306005304 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 522306005305 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306005306 AIR carboxylase; Region: AIRC; cl00310 522306005307 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 522306005308 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 522306005309 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 522306005310 homodimer interface [polypeptide binding]; other site 522306005311 NADP binding site [chemical binding]; other site 522306005312 substrate binding site [chemical binding]; other site 522306005313 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 522306005314 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 522306005315 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 522306005316 dimer interface [polypeptide binding]; other site 522306005317 PYR/PP interface [polypeptide binding]; other site 522306005318 TPP binding site [chemical binding]; other site 522306005319 substrate binding site [chemical binding]; other site 522306005320 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 522306005321 TPP-binding site; other site 522306005322 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 522306005323 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 522306005324 substrate binding pocket [chemical binding]; other site 522306005325 membrane-bound complex binding site; other site 522306005326 hinge residues; other site 522306005327 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 522306005328 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 522306005329 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 522306005330 Ligand Binding Site [chemical binding]; other site 522306005331 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 522306005332 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 522306005333 dimer interface [polypeptide binding]; other site 522306005334 TPP-binding site [chemical binding]; other site 522306005335 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 522306005336 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 522306005337 E3 interaction surface; other site 522306005338 lipoyl attachment site [posttranslational modification]; other site 522306005339 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 522306005340 E3 interaction surface; other site 522306005341 lipoyl attachment site [posttranslational modification]; other site 522306005342 e3 binding domain; Region: E3_binding; pfam02817 522306005343 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 522306005344 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 522306005345 E3 interaction surface; other site 522306005346 lipoyl attachment site [posttranslational modification]; other site 522306005347 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 522306005348 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306005349 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 522306005350 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 522306005351 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306005352 Methyltransferase domain; Region: Methyltransf_31; pfam13847 522306005353 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 522306005354 S-adenosylmethionine binding site [chemical binding]; other site 522306005355 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306005356 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 522306005357 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306005358 SEC-C motif; Region: SEC-C; pfam02810 522306005359 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 522306005360 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306005361 binding surface 522306005362 TPR motif; other site 522306005363 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 522306005364 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 522306005365 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 522306005366 dimerization interface [polypeptide binding]; other site 522306005367 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306005368 dimer interface [polypeptide binding]; other site 522306005369 putative CheW interface [polypeptide binding]; other site 522306005370 DNA-binding response regulator CreB; Provisional; Region: PRK11083 522306005371 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 522306005372 active site 522306005373 phosphorylation site [posttranslational modification] 522306005374 intermolecular recognition site; other site 522306005375 dimerization interface [polypeptide binding]; other site 522306005376 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 522306005377 DNA binding site [nucleotide binding] 522306005378 sensory histidine kinase CreC; Provisional; Region: PRK11100 522306005379 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 522306005380 dimer interface [polypeptide binding]; other site 522306005381 phosphorylation site [posttranslational modification] 522306005382 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 522306005383 ATP binding site [chemical binding]; other site 522306005384 G-X-G motif; other site 522306005385 Inner membrane protein CreD; Region: CreD; cl01844 522306005386 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 522306005387 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 522306005388 dimer interface [polypeptide binding]; other site 522306005389 phosphorylation site [posttranslational modification] 522306005390 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 522306005391 ATP binding site [chemical binding]; other site 522306005392 Mg2+ binding site [ion binding]; other site 522306005393 G-X-G motif; other site 522306005394 Response regulator receiver domain; Region: Response_reg; pfam00072 522306005395 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 522306005396 active site 522306005397 phosphorylation site [posttranslational modification] 522306005398 intermolecular recognition site; other site 522306005399 dimerization interface [polypeptide binding]; other site 522306005400 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 522306005401 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306005402 potassium uptake protein; Region: kup; TIGR00794 522306005403 K+ potassium transporter; Region: K_trans; cl15781 522306005404 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 522306005405 putative acyl-acceptor binding pocket; other site 522306005406 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 522306005407 pyruvate kinase; Validated; Region: PRK08187 522306005408 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 522306005409 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 522306005410 active site 522306005411 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 522306005412 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 522306005413 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 522306005414 putative FMN binding site [chemical binding]; other site 522306005415 Cupin domain; Region: Cupin_2; cl09118 522306005416 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 522306005417 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 522306005418 substrate binding site; other site 522306005419 tetramer interface; other site 522306005420 TIR domain; Region: TIR_2; cl15770 522306005421 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 522306005422 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 522306005423 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 522306005424 ATP binding site [chemical binding]; other site 522306005425 putative Mg++ binding site [ion binding]; other site 522306005426 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 522306005427 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 522306005428 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522306005429 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522306005430 HsdM N-terminal domain; Region: HsdM_N; pfam12161 522306005431 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 522306005432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306005433 TIR domain; Region: TIR_2; cl15770 522306005434 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 522306005435 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306005436 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 522306005437 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306005438 active site 522306005439 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 522306005440 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 522306005441 catalytic loop [active] 522306005442 iron binding site [ion binding]; other site 522306005443 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 522306005444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306005445 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 522306005446 ligand binding site [chemical binding]; other site 522306005447 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 522306005448 phosphopeptide binding site; other site 522306005449 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 522306005450 phosphopeptide binding site; other site 522306005451 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 522306005452 Putative phosphatase regulatory subunit; Region: CBM_21; pfam03370 522306005453 Putative phosphatase regulatory subunit; Region: CBM_21; pfam03370 522306005454 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 522306005455 putative catalytic site [active] 522306005456 putative metal binding site [ion binding]; other site 522306005457 putative phosphate binding site [ion binding]; other site 522306005458 PLD-like domain; Region: PLDc_2; pfam13091 522306005459 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 522306005460 putative active site [active] 522306005461 catalytic site [active] 522306005462 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 522306005463 PLD-like domain; Region: PLDc_2; pfam13091 522306005464 putative active site [active] 522306005465 catalytic site [active] 522306005466 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 522306005467 AMP-binding enzyme; Region: AMP-binding; cl15778 522306005468 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306005469 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 522306005470 pyruvate kinase; Provisional; Region: PRK05826 522306005471 domain interfaces; other site 522306005472 active site 522306005473 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 522306005474 Prostaglandin dehydrogenases; Region: PGDH; cd05288 522306005475 NAD(P) binding site [chemical binding]; other site 522306005476 substrate binding site [chemical binding]; other site 522306005477 dimer interface [polypeptide binding]; other site 522306005478 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 522306005479 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 522306005480 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 522306005481 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 522306005482 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 522306005483 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 522306005484 active site 522306005485 metal binding site [ion binding]; metal-binding site 522306005486 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 522306005487 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 522306005488 BON domain; Region: BON; cl02771 522306005489 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 522306005490 putative peptidoglycan binding site; other site 522306005491 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 522306005492 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 522306005493 methionine aminotransferase; Validated; Region: PRK09082 522306005494 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 522306005495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306005496 homodimer interface [polypeptide binding]; other site 522306005497 catalytic residue [active] 522306005498 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 522306005499 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 522306005500 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 522306005501 substrate binding site [chemical binding]; other site 522306005502 catalytic Zn binding site [ion binding]; other site 522306005503 NAD binding site [chemical binding]; other site 522306005504 structural Zn binding site [ion binding]; other site 522306005505 dimer interface [polypeptide binding]; other site 522306005506 Predicted esterase [General function prediction only]; Region: COG0627 522306005507 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306005508 HDOD domain; Region: HDOD; pfam08668 522306005509 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 522306005510 active site 522306005511 phosphorylation site [posttranslational modification] 522306005512 intermolecular recognition site; other site 522306005513 dimerization interface [polypeptide binding]; other site 522306005514 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306005515 metal binding site [ion binding]; metal-binding site 522306005516 active site 522306005517 I-site; other site 522306005518 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 522306005519 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 522306005520 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 522306005521 catalytic residues [active] 522306005522 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 522306005523 AMP-binding enzyme; Region: AMP-binding; cl15778 522306005524 chorismate binding enzyme; Region: Chorismate_bind; cl10555 522306005525 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 522306005526 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 522306005527 dimer interface [polypeptide binding]; other site 522306005528 tetramer interface [polypeptide binding]; other site 522306005529 PYR/PP interface [polypeptide binding]; other site 522306005530 TPP binding site [chemical binding]; other site 522306005531 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 522306005532 TPP-binding site; other site 522306005533 Transposase [DNA replication, recombination, and repair]; Region: COG5421 522306005534 Helix-turn-helix domains; Region: HTH; cl00088 522306005535 Integrase core domain; Region: rve; cl01316 522306005536 Integrase core domain; Region: rve_3; cl15866 522306005537 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 522306005538 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 522306005539 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306005540 Walker A motif; other site 522306005541 ATP binding site [chemical binding]; other site 522306005542 Walker B motif; other site 522306005543 arginine finger; other site 522306005544 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306005545 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 522306005546 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 522306005547 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 522306005548 AMP-binding enzyme; Region: AMP-binding; cl15778 522306005549 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306005550 Response regulator receiver domain; Region: Response_reg; pfam00072 522306005551 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 522306005552 active site 522306005553 phosphorylation site [posttranslational modification] 522306005554 intermolecular recognition site; other site 522306005555 dimerization interface [polypeptide binding]; other site 522306005556 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306005557 metal binding site [ion binding]; metal-binding site 522306005558 active site 522306005559 I-site; other site 522306005560 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 522306005561 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 522306005562 NADP binding site [chemical binding]; other site 522306005563 dimer interface [polypeptide binding]; other site 522306005564 NlpC/P60 family; Region: NLPC_P60; cl11438 522306005565 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 522306005566 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306005567 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 522306005568 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 522306005569 dimer interface [polypeptide binding]; other site 522306005570 conserved gate region; other site 522306005571 putative PBP binding loops; other site 522306005572 ABC-ATPase subunit interface; other site 522306005573 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 522306005574 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 522306005575 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306005576 Walker A/P-loop; other site 522306005577 ATP binding site [chemical binding]; other site 522306005578 Q-loop/lid; other site 522306005579 ABC transporter signature motif; other site 522306005580 Walker B; other site 522306005581 D-loop; other site 522306005582 H-loop/switch region; other site 522306005583 TOBE domain; Region: TOBE_2; cl01440 522306005584 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306005585 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 522306005586 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 522306005587 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306005588 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 522306005589 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 becoming...; Region: Lipase; cl14883 522306005590 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306005591 nucleophilic elbow; other site 522306005592 catalytic triad; other site 522306005593 GMP synthase; Reviewed; Region: guaA; PRK00074 522306005594 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 522306005595 AMP/PPi binding site [chemical binding]; other site 522306005596 candidate oxyanion hole; other site 522306005597 catalytic triad [active] 522306005598 potential glutamine specificity residues [chemical binding]; other site 522306005599 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 522306005600 ATP Binding subdomain [chemical binding]; other site 522306005601 Ligand Binding sites [chemical binding]; other site 522306005602 Dimerization subdomain; other site 522306005603 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 522306005604 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 522306005605 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 522306005606 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 522306005607 active site 522306005608 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 522306005609 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 522306005610 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 522306005611 putative coenzyme Q binding site [chemical binding]; other site 522306005612 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 522306005613 SmpB-tmRNA interface; other site 522306005614 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 522306005615 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522306005616 DNA-binding site [nucleotide binding]; DNA binding site 522306005617 FCD domain; Region: FCD; cl11656 522306005618 Integrase core domain; Region: rve; cl01316 522306005619 Cysteine-rich domain; Region: CCG; pfam02754 522306005620 Cysteine-rich domain; Region: CCG; pfam02754 522306005621 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 522306005622 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 522306005623 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 522306005624 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 522306005625 Cupin domain; Region: Cupin_2; cl09118 522306005626 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 522306005627 Helix-turn-helix domains; Region: HTH; cl00088 522306005628 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 522306005629 dimerization interface [polypeptide binding]; other site 522306005630 substrate binding pocket [chemical binding]; other site 522306005631 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 522306005632 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 522306005633 Walker A motif; other site 522306005634 ATP binding site [chemical binding]; other site 522306005635 ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]; Region: HslU; COG1220 522306005636 Walker B motif; other site 522306005637 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 522306005638 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 522306005639 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 522306005640 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 522306005641 dinuclear metal binding motif [ion binding]; other site 522306005642 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 522306005643 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 522306005644 catalytic residues [active] 522306005645 dimer interface [polypeptide binding]; other site 522306005646 glycine dehydrogenase; Provisional; Region: PRK05367 522306005647 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 522306005648 tetramer interface [polypeptide binding]; other site 522306005649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306005650 catalytic residue [active] 522306005651 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 522306005652 tetramer interface [polypeptide binding]; other site 522306005653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306005654 catalytic residue [active] 522306005655 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 522306005656 lipoyl attachment site [posttranslational modification]; other site 522306005657 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 522306005658 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 522306005659 PEP-CTERM motif; Region: VPEP; cl15443 522306005660 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 522306005661 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 522306005662 Mg++ binding site [ion binding]; other site 522306005663 putative catalytic motif [active] 522306005664 substrate binding site [chemical binding]; other site 522306005665 Low molecular weight phosphatase family; Region: LMWPc; cd00115 522306005666 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 522306005667 active site 522306005668 polysaccharide export protein Wza; Provisional; Region: PRK15078 522306005669 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 522306005670 SLBB domain; Region: SLBB; pfam10531 522306005671 tyrosine kinase; Provisional; Region: PRK11519 522306005672 Chain length determinant protein; Region: Wzz; cl15801 522306005673 Chain length determinant protein; Region: Wzz; cl15801 522306005674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306005675 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 522306005676 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 522306005677 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 522306005678 Carboxysome Shell Carbonic Anhydrase; Region: CsoSCA; cl07510 522306005679 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 522306005680 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 522306005681 CysD dimerization site [polypeptide binding]; other site 522306005682 G1 box; other site 522306005683 putative GEF interaction site [polypeptide binding]; other site 522306005684 GTP/Mg2+ binding site [chemical binding]; other site 522306005685 Switch I region; other site 522306005686 G2 box; other site 522306005687 G3 box; other site 522306005688 Switch II region; other site 522306005689 G4 box; other site 522306005690 G5 box; other site 522306005691 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 522306005692 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 522306005693 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 522306005694 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 522306005695 Active Sites [active] 522306005696 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 522306005697 Active Sites [active] 522306005698 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 522306005699 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 522306005700 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 522306005701 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 522306005702 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 522306005703 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 522306005704 Helix-turn-helix domains; Region: HTH; cl00088 522306005705 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 522306005706 substrate binding site [chemical binding]; other site 522306005707 dimerization interface [polypeptide binding]; other site 522306005708 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306005709 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 522306005710 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 522306005711 trimer interface [polypeptide binding]; other site 522306005712 putative metal binding site [ion binding]; other site 522306005713 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522306005714 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 522306005715 FtsX-like permease family; Region: FtsX; cl15850 522306005716 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522306005717 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 522306005718 Walker A/P-loop; other site 522306005719 ATP binding site [chemical binding]; other site 522306005720 Q-loop/lid; other site 522306005721 ABC transporter signature motif; other site 522306005722 Walker B; other site 522306005723 D-loop; other site 522306005724 H-loop/switch region; other site 522306005725 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306005726 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306005727 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 522306005728 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 522306005729 Protein of unknown function, DUF479; Region: DUF479; cl01203 522306005730 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 522306005731 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 522306005732 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 522306005733 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 522306005734 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 522306005735 G1 box; other site 522306005736 putative GEF interaction site [polypeptide binding]; other site 522306005737 GTP/Mg2+ binding site [chemical binding]; other site 522306005738 Switch I region; other site 522306005739 G2 box; other site 522306005740 G3 box; other site 522306005741 Switch II region; other site 522306005742 G4 box; other site 522306005743 G5 box; other site 522306005744 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 522306005745 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 522306005746 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 522306005747 apolar tunnel; other site 522306005748 heme binding site [chemical binding]; other site 522306005749 dimerization interface [polypeptide binding]; other site 522306005750 FOG: CBS domain [General function prediction only]; Region: COG0517 522306005751 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 522306005752 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522306005753 metal binding triad; other site 522306005754 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 522306005755 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 522306005756 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 522306005757 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 522306005758 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 522306005759 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 522306005760 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 522306005761 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 522306005762 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 522306005763 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 522306005764 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 522306005765 transcriptional regulator PhoU; Provisional; Region: PRK11115 522306005766 PhoU domain; Region: PhoU; pfam01895 522306005767 PhoU domain; Region: PhoU; pfam01895 522306005768 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 522306005769 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 522306005770 active site 522306005771 phosphorylation site [posttranslational modification] 522306005772 intermolecular recognition site; other site 522306005773 dimerization interface [polypeptide binding]; other site 522306005774 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 522306005775 DNA binding site [nucleotide binding] 522306005776 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 522306005777 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306005778 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 522306005779 dimer interface [polypeptide binding]; other site 522306005780 phosphorylation site [posttranslational modification] 522306005781 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 522306005782 ATP binding site [chemical binding]; other site 522306005783 Mg2+ binding site [ion binding]; other site 522306005784 G-X-G motif; other site 522306005785 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 522306005786 secondary substrate binding site; other site 522306005787 primary substrate binding site; other site 522306005788 inhibition loop; other site 522306005789 dimerization interface [polypeptide binding]; other site 522306005790 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 522306005791 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 522306005792 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14252 522306005793 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 522306005794 Walker A/P-loop; other site 522306005795 ATP binding site [chemical binding]; other site 522306005796 Q-loop/lid; other site 522306005797 ABC transporter signature motif; other site 522306005798 Walker B; other site 522306005799 D-loop; other site 522306005800 H-loop/switch region; other site 522306005801 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 522306005802 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 522306005803 dimer interface [polypeptide binding]; other site 522306005804 conserved gate region; other site 522306005805 putative PBP binding loops; other site 522306005806 ABC-ATPase subunit interface; other site 522306005807 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 522306005808 dimer interface [polypeptide binding]; other site 522306005809 conserved gate region; other site 522306005810 putative PBP binding loops; other site 522306005811 ABC-ATPase subunit interface; other site 522306005812 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306005813 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306005814 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 522306005815 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 522306005816 metal binding site [ion binding]; metal-binding site 522306005817 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; cl00462 522306005818 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 522306005819 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 522306005820 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 522306005821 Putative zinc-finger; Region: zf-HC2; cl15806 522306005822 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 522306005823 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522306005824 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 522306005825 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 522306005826 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 522306005827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306005828 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 522306005829 active site 522306005830 dimerization interface [polypeptide binding]; other site 522306005831 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 522306005832 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 522306005833 serine O-acetyltransferase; Region: cysE; TIGR01172 522306005834 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 522306005835 trimer interface [polypeptide binding]; other site 522306005836 active site 522306005837 substrate binding site [chemical binding]; other site 522306005838 CoA binding site [chemical binding]; other site 522306005839 Helix-turn-helix domains; Region: HTH; cl00088 522306005840 Rrf2 family protein; Region: rrf2_super; TIGR00738 522306005841 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 522306005842 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 522306005843 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306005844 catalytic residue [active] 522306005845 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 522306005846 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 522306005847 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306005848 catalytic residue [active] 522306005849 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 522306005850 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 522306005851 trimerization site [polypeptide binding]; other site 522306005852 active site 522306005853 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 522306005854 co-chaperone HscB; Provisional; Region: hscB; PRK03578 522306005855 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 522306005856 HSP70 interaction site [polypeptide binding]; other site 522306005857 chaperone protein HscA; Provisional; Region: hscA; PRK05183 522306005858 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 522306005859 catalytic loop [active] 522306005860 iron binding site [ion binding]; other site 522306005861 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 522306005862 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 522306005863 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 522306005864 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 522306005865 dimer interface [polypeptide binding]; other site 522306005866 ADP-ribose binding site [chemical binding]; other site 522306005867 active site 522306005868 nudix motif; other site 522306005869 metal binding site [ion binding]; metal-binding site 522306005870 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 522306005871 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 522306005872 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 522306005873 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306005874 catalytic residue [active] 522306005875 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 522306005876 FAD binding domain; Region: FAD_binding_4; pfam01565 522306005877 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 522306005878 FAD binding domain; Region: FAD_binding_4; pfam01565 522306005879 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 522306005880 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 522306005881 Cysteine-rich domain; Region: CCG; pfam02754 522306005882 Cysteine-rich domain; Region: CCG; pfam02754 522306005883 AMP-binding enzyme; Region: AMP-binding; cl15778 522306005884 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 522306005885 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 522306005886 active site 522306005887 helicase 45; Provisional; Region: PTZ00424 522306005888 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 522306005889 ATP binding site [chemical binding]; other site 522306005890 Mg++ binding site [ion binding]; other site 522306005891 motif III; other site 522306005892 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 522306005893 nucleotide binding region [chemical binding]; other site 522306005894 ATP-binding site [chemical binding]; other site 522306005895 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 522306005896 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 522306005897 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 522306005898 TPR motif; other site 522306005899 binding surface 522306005900 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306005901 binding surface 522306005902 TPR motif; other site 522306005903 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306005904 binding surface 522306005905 TPR motif; other site 522306005906 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306005907 binding surface 522306005908 TPR motif; other site 522306005909 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306005910 TPR motif; other site 522306005911 binding surface 522306005912 Transposase domain (DUF772); Region: DUF772; cl15789 522306005913 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306005914 Transposase domain (DUF772); Region: DUF772; cl15789 522306005915 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306005916 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 522306005917 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 522306005918 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 522306005919 active site 522306005920 catalytic site [active] 522306005921 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 522306005922 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 522306005923 motif 1; other site 522306005924 active site 522306005925 motif 2; other site 522306005926 motif 3; other site 522306005927 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 522306005928 DHHA1 domain; Region: DHHA1; pfam02272 522306005929 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 522306005930 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 522306005931 tetramer interface [polypeptide binding]; other site 522306005932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306005933 catalytic residue [active] 522306005934 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 522306005935 nudix motif; other site 522306005936 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 522306005937 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 522306005938 Walker A/P-loop; other site 522306005939 ATP binding site [chemical binding]; other site 522306005940 Q-loop/lid; other site 522306005941 ABC transporter signature motif; other site 522306005942 Walker B; other site 522306005943 D-loop; other site 522306005944 H-loop/switch region; other site 522306005945 Cobalt transport protein; Region: CbiQ; cl00463 522306005946 Cobalt transport protein component CbiN; Region: CbiN; cl00842 522306005947 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 522306005948 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522306005949 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 522306005950 substrate binding pocket [chemical binding]; other site 522306005951 membrane-bound complex binding site; other site 522306005952 hinge residues; other site 522306005953 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 522306005954 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 522306005955 dimer interface [polypeptide binding]; other site 522306005956 conserved gate region; other site 522306005957 putative PBP binding loops; other site 522306005958 ABC-ATPase subunit interface; other site 522306005959 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 522306005960 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 522306005961 Walker A/P-loop; other site 522306005962 ATP binding site [chemical binding]; other site 522306005963 Q-loop/lid; other site 522306005964 ABC transporter signature motif; other site 522306005965 Walker B; other site 522306005966 D-loop; other site 522306005967 H-loop/switch region; other site 522306005968 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306005969 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 522306005970 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 522306005971 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 522306005972 putative substrate binding site [chemical binding]; other site 522306005973 putative ATP binding site [chemical binding]; other site 522306005974 glycogen branching enzyme; Provisional; Region: PRK12313 522306005975 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 522306005976 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 522306005977 active site 522306005978 catalytic site [active] 522306005979 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 522306005980 putative oxidoreductase; Provisional; Region: PRK11579 522306005981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306005982 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 522306005983 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 522306005984 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 522306005985 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306005986 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522306005987 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306005988 dimer interface [polypeptide binding]; other site 522306005989 putative CheW interface [polypeptide binding]; other site 522306005990 PilZ domain; Region: PilZ; cl01260 522306005991 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522306005992 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 522306005993 Walker A motif; other site 522306005994 ATP binding site [chemical binding]; other site 522306005995 Walker B motif; other site 522306005996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306005997 Integrase core domain; Region: rve; cl01316 522306005998 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 522306005999 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 522306006000 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 522306006001 MOFRL family; Region: MOFRL; pfam05161 522306006002 Cytochrome c; Region: Cytochrom_C; cl11414 522306006003 Cytochrome c; Region: Cytochrom_C; cl11414 522306006004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 522306006005 NMT1-like family; Region: NMT1_2; cl15260 522306006006 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306006007 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306006008 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306006009 binding surface 522306006010 TPR motif; other site 522306006011 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306006012 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306006013 binding surface 522306006014 TPR motif; other site 522306006015 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306006016 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306006017 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306006018 binding surface 522306006019 TPR motif; other site 522306006020 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306006021 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 522306006022 SEC-C motif; Region: SEC-C; pfam02810 522306006023 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 522306006024 substrate binding site [chemical binding]; other site 522306006025 Cupin domain; Region: Cupin_2; cl09118 522306006026 Ubiquitin-like proteins; Region: UBQ; cl00155 522306006027 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 522306006028 Protein of unknown function DUF82; Region: DUF82; pfam01927 522306006029 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; cd00296 522306006030 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 522306006031 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 522306006032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306006033 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 522306006034 CHASE domain; Region: CHASE; cl01369 522306006035 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 522306006036 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522306006037 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 522306006038 ATP binding site [chemical binding]; other site 522306006039 Mg2+ binding site [ion binding]; other site 522306006040 G-X-G motif; other site 522306006041 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522306006042 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 522306006043 active site 522306006044 phosphorylation site [posttranslational modification] 522306006045 intermolecular recognition site; other site 522306006046 dimerization interface [polypeptide binding]; other site 522306006047 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 522306006048 Walker A motif; other site 522306006049 ATP binding site [chemical binding]; other site 522306006050 Walker B motif; other site 522306006051 arginine finger; other site 522306006052 Helix-turn-helix domains; Region: HTH; cl00088 522306006053 Phosphate transporter family; Region: PHO4; cl00396 522306006054 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 522306006055 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 522306006056 putative active site; other site 522306006057 putative metal binding residues [ion binding]; other site 522306006058 signature motif; other site 522306006059 putative triphosphate binding site [ion binding]; other site 522306006060 CHAD domain; Region: CHAD; cl10506 522306006061 Helix-turn-helix domains; Region: HTH; cl00088 522306006062 Integrase core domain; Region: rve; cl01316 522306006063 Integrase core domain; Region: rve_3; cl15866 522306006064 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 522306006065 AAA domain; Region: AAA_22; pfam13401 522306006066 Walker A motif; other site 522306006067 ATP binding site [chemical binding]; other site 522306006068 Walker B motif; other site 522306006069 arginine finger; other site 522306006070 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 522306006071 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 522306006072 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306006073 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 522306006074 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 522306006075 ligand binding site [chemical binding]; other site 522306006076 flexible hinge region; other site 522306006077 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 522306006078 Ligand Binding Site [chemical binding]; other site 522306006079 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 522306006080 endonuclease III; Region: ENDO3c; smart00478 522306006081 minor groove reading motif; other site 522306006082 helix-hairpin-helix signature motif; other site 522306006083 substrate binding pocket [chemical binding]; other site 522306006084 active site 522306006085 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 522306006086 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 522306006087 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 522306006088 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 522306006089 Ligand Binding Site [chemical binding]; other site 522306006090 TilS substrate binding domain; Region: TilS; pfam09179 522306006091 B3/4 domain; Region: B3_4; cl11458 522306006092 potassium uptake protein; Region: kup; TIGR00794 522306006093 K+ potassium transporter; Region: K_trans; cl15781 522306006094 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 522306006095 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 522306006096 substrate binding site [chemical binding]; other site 522306006097 oxyanion hole (OAH) forming residues; other site 522306006098 trimer interface [polypeptide binding]; other site 522306006099 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 522306006100 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 522306006101 active site 522306006102 phosphorylation site [posttranslational modification] 522306006103 intermolecular recognition site; other site 522306006104 dimerization interface [polypeptide binding]; other site 522306006105 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522306006106 DNA binding residues [nucleotide binding] 522306006107 dimerization interface [polypeptide binding]; other site 522306006108 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 522306006109 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 522306006110 putative active site [active] 522306006111 heme pocket [chemical binding]; other site 522306006112 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 522306006113 dimer interface [polypeptide binding]; other site 522306006114 phosphorylation site [posttranslational modification] 522306006115 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 522306006116 ATP binding site [chemical binding]; other site 522306006117 Mg2+ binding site [ion binding]; other site 522306006118 G-X-G motif; other site 522306006119 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 522306006120 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 522306006121 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 522306006122 DctM-like transporters; Region: DctM; pfam06808 522306006123 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 522306006124 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 522306006125 active site 522306006126 multimer interface [polypeptide binding]; other site 522306006127 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 522306006128 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 522306006129 FeS/SAM binding site; other site 522306006130 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 522306006131 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306006132 binding surface 522306006133 TPR motif; other site 522306006134 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306006135 binding surface 522306006136 TPR motif; other site 522306006137 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 522306006138 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 522306006139 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 522306006140 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 522306006141 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 522306006142 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 522306006143 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 522306006144 dimer interface [polypeptide binding]; other site 522306006145 motif 1; other site 522306006146 active site 522306006147 motif 2; other site 522306006148 motif 3; other site 522306006149 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 522306006150 anticodon binding site; other site 522306006151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 522306006152 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 522306006153 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 522306006154 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 522306006155 Trp docking motif [polypeptide binding]; other site 522306006156 active site 522306006157 GTP-binding protein Der; Reviewed; Region: PRK00093 522306006158 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 522306006159 G1 box; other site 522306006160 GTP/Mg2+ binding site [chemical binding]; other site 522306006161 Switch I region; other site 522306006162 G2 box; other site 522306006163 Switch II region; other site 522306006164 G3 box; other site 522306006165 G4 box; other site 522306006166 G5 box; other site 522306006167 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 522306006168 G1 box; other site 522306006169 GTP/Mg2+ binding site [chemical binding]; other site 522306006170 Switch I region; other site 522306006171 G2 box; other site 522306006172 G3 box; other site 522306006173 Switch II region; other site 522306006174 G4 box; other site 522306006175 G5 box; other site 522306006176 Low molecular weight phosphatase family; Region: LMWPc; cd00115 522306006177 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 522306006178 active site 522306006179 CheB methylesterase; Region: CheB_methylest; pfam01339 522306006180 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 522306006181 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 522306006182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306006183 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 522306006184 PAS domain; Region: PAS_10; pfam13596 522306006185 PAS fold; Region: PAS_4; pfam08448 522306006186 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 522306006187 putative active site [active] 522306006188 heme pocket [chemical binding]; other site 522306006189 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 522306006190 PAS domain; Region: PAS_9; pfam13426 522306006191 putative active site [active] 522306006192 heme pocket [chemical binding]; other site 522306006193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306006194 metal binding site [ion binding]; metal-binding site 522306006195 active site 522306006196 I-site; other site 522306006197 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 522306006198 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306006199 LexA repressor; Validated; Region: PRK00215 522306006200 Helix-turn-helix domains; Region: HTH; cl00088 522306006201 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 522306006202 Catalytic site [active] 522306006203 DNA Polymerase Y-family; Region: PolY_like; cd03468 522306006204 DNA binding site [nucleotide binding] 522306006205 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 522306006206 octamerization interface [polypeptide binding]; other site 522306006207 diferric-oxygen binding site [ion binding]; other site 522306006208 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 522306006209 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 522306006210 active site 522306006211 dimer interface [polypeptide binding]; other site 522306006212 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 522306006213 dimer interface [polypeptide binding]; other site 522306006214 active site 522306006215 phosphoglucomutase; Region: PLN02307 522306006216 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 522306006217 active site 522306006218 substrate binding site [chemical binding]; other site 522306006219 metal binding site [ion binding]; metal-binding site 522306006220 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 522306006221 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 522306006222 ligand binding site; other site 522306006223 oligomer interface; other site 522306006224 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 522306006225 dimer interface [polypeptide binding]; other site 522306006226 N-terminal domain interface [polypeptide binding]; other site 522306006227 sulfate 1 binding site; other site 522306006228 glycogen synthase; Provisional; Region: glgA; PRK00654 522306006229 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 522306006230 ADP-binding pocket [chemical binding]; other site 522306006231 homodimer interface [polypeptide binding]; other site 522306006232 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 522306006233 selenophosphate synthetase; Provisional; Region: PRK00943 522306006234 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 522306006235 dimerization interface [polypeptide binding]; other site 522306006236 putative ATP binding site [chemical binding]; other site 522306006237 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 522306006238 metal-binding site [ion binding] 522306006239 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522306006240 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 522306006241 metal-binding site [ion binding] 522306006242 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306006243 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306006244 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 522306006245 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 522306006246 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 522306006247 FeS/SAM binding site; other site 522306006248 HemN C-terminal domain; Region: HemN_C; pfam06969 522306006249 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 522306006250 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 522306006251 ligand binding site [chemical binding]; other site 522306006252 flexible hinge region; other site 522306006253 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 522306006254 putative switch regulator; other site 522306006255 non-specific DNA interactions [nucleotide binding]; other site 522306006256 DNA binding site [nucleotide binding] 522306006257 sequence specific DNA binding site [nucleotide binding]; other site 522306006258 putative cAMP binding site [chemical binding]; other site 522306006259 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 522306006260 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 522306006261 CPxP motif; other site 522306006262 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 522306006263 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 522306006264 Ligand Binding Site [chemical binding]; other site 522306006265 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 522306006266 catalytic motif [active] 522306006267 Catalytic residue [active] 522306006268 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 522306006269 putative active site [active] 522306006270 putative CoA binding site [chemical binding]; other site 522306006271 nudix motif; other site 522306006272 metal binding site [ion binding]; metal-binding site 522306006273 beta-ketothiolase; Provisional; Region: PRK09051 522306006274 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 522306006275 dimer interface [polypeptide binding]; other site 522306006276 active site 522306006277 HipA N-terminal domain; Region: Couple_hipA; cl11853 522306006278 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 522306006279 HipA-like N-terminal domain; Region: HipA_N; pfam07805 522306006280 HipA-like C-terminal domain; Region: HipA_C; pfam07804 522306006281 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 522306006282 non-specific DNA binding site [nucleotide binding]; other site 522306006283 salt bridge; other site 522306006284 sequence-specific DNA binding site [nucleotide binding]; other site 522306006285 Predicted transcriptional regulator [Transcription]; Region: COG2378 522306006286 Helix-turn-helix domains; Region: HTH; cl00088 522306006287 WYL domain; Region: WYL; cl14852 522306006288 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 522306006289 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 522306006290 ATP binding site [chemical binding]; other site 522306006291 putative Mg++ binding site [ion binding]; other site 522306006292 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 522306006293 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 522306006294 ATP-binding site [chemical binding]; other site 522306006295 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 522306006296 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 522306006297 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 522306006298 ATP binding site [chemical binding]; other site 522306006299 putative Mg++ binding site [ion binding]; other site 522306006300 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 522306006301 nucleotide binding region [chemical binding]; other site 522306006302 ATP-binding site [chemical binding]; other site 522306006303 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006304 Archaeal ATPase; Region: Arch_ATPase; pfam01637 522306006305 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 522306006306 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 522306006307 putative transposase OrfB; Reviewed; Region: PHA02517 522306006308 HTH-like domain; Region: HTH_21; pfam13276 522306006309 Integrase core domain; Region: rve; cl01316 522306006310 Integrase core domain; Region: rve_3; cl15866 522306006311 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 522306006312 metal ion-dependent adhesion site (MIDAS); other site 522306006313 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 522306006314 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 522306006315 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006316 Family description; Region: UvrD_C_2; cl15862 522306006317 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006318 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006319 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 522306006320 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 522306006321 S-adenosylmethionine binding site [chemical binding]; other site 522306006322 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 522306006323 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306006324 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306006325 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 522306006326 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 522306006327 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306006328 catalytic residue [active] 522306006329 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 522306006330 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 522306006331 inhibitor-cofactor binding pocket; inhibition site 522306006332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306006333 catalytic residue [active] 522306006334 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 522306006335 Cache domain; Region: Cache_2; cl07034 522306006336 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 522306006337 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306006338 dimer interface [polypeptide binding]; other site 522306006339 putative CheW interface [polypeptide binding]; other site 522306006340 MarC family integral membrane protein; Region: MarC; cl00919 522306006341 amidase; Provisional; Region: PRK06170 522306006342 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 522306006343 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 522306006344 S-adenosylmethionine binding site [chemical binding]; other site 522306006345 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 522306006346 putative substrate translocation pore; other site 522306006347 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 522306006348 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 522306006349 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 522306006350 catalytic residue [active] 522306006351 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 522306006352 active site 522306006353 nucleophile elbow; other site 522306006354 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 522306006355 B12 binding site [chemical binding]; other site 522306006356 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 522306006357 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 522306006358 FeS/SAM binding site; other site 522306006359 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 522306006360 PAS fold; Region: PAS_4; pfam08448 522306006361 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 522306006362 putative active site [active] 522306006363 heme pocket [chemical binding]; other site 522306006364 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306006365 metal binding site [ion binding]; metal-binding site 522306006366 active site 522306006367 I-site; other site 522306006368 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 522306006369 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 522306006370 Helix-turn-helix domains; Region: HTH; cl00088 522306006371 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306006372 dimerization interface [polypeptide binding]; other site 522306006373 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 522306006374 30S subunit binding site; other site 522306006375 Integral membrane protein TerC family; Region: TerC; cl10468 522306006376 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 522306006377 Ligand Binding Site [chemical binding]; other site 522306006378 YccA-like proteins; Region: YccA_like; cd10433 522306006379 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 522306006380 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 522306006381 Ion transport protein; Region: Ion_trans; pfam00520 522306006382 Peptidase family M48; Region: Peptidase_M48; cl12018 522306006383 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 522306006384 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 522306006385 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 522306006386 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 522306006387 Helix-turn-helix domains; Region: HTH; cl00088 522306006388 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 522306006389 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 522306006390 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl14784 522306006391 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl14784 522306006392 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 522306006393 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 522306006394 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 522306006395 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 522306006396 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 522306006397 Predicted CRISPR-associated polymerase [Defense mechanisms]; Region: COG1353 522306006398 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 522306006399 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 522306006400 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 522306006401 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 522306006402 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09741 522306006403 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 522306006404 structural tetrad; other site 522306006405 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 522306006406 structural tetrad; other site 522306006407 FOG: WD40 repeat [General function prediction only]; Region: COG2319 522306006408 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 522306006409 structural tetrad; other site 522306006410 TIR domain; Region: TIR_2; cl15770 522306006411 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 522306006412 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 522306006413 ligand binding site [chemical binding]; other site 522306006414 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 522306006415 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 522306006416 ligand binding site [chemical binding]; other site 522306006417 hypothetical protein; Provisional; Region: PRK13560 522306006418 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 522306006419 putative active site [active] 522306006420 heme pocket [chemical binding]; other site 522306006421 GAF domain; Region: GAF_2; pfam13185 522306006422 GAF domain; Region: GAF; cl15785 522306006423 PAS fold; Region: PAS_3; pfam08447 522306006424 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 522306006425 PAS domain S-box; Region: sensory_box; TIGR00229 522306006426 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306006427 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 522306006428 PAS domain; Region: PAS_9; pfam13426 522306006429 putative active site [active] 522306006430 heme pocket [chemical binding]; other site 522306006431 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306006432 PAS domain; Region: PAS_9; pfam13426 522306006433 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306006434 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 522306006435 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 522306006436 ATP binding site [chemical binding]; other site 522306006437 Mg2+ binding site [ion binding]; other site 522306006438 G-X-G motif; other site 522306006439 ABC-2 type transporter; Region: ABC2_membrane; cl11417 522306006440 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 522306006441 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006442 Walker A/P-loop; other site 522306006443 ATP binding site [chemical binding]; other site 522306006444 Q-loop/lid; other site 522306006445 ABC transporter signature motif; other site 522306006446 Walker B; other site 522306006447 D-loop; other site 522306006448 H-loop/switch region; other site 522306006449 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006450 Walker A/P-loop; other site 522306006451 ATP binding site [chemical binding]; other site 522306006452 Q-loop/lid; other site 522306006453 ABC transporter signature motif; other site 522306006454 Walker B; other site 522306006455 D-loop; other site 522306006456 H-loop/switch region; other site 522306006457 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 522306006458 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 522306006459 ABC-2 type transporter; Region: ABC2_membrane; cl11417 522306006460 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 522306006461 E3 interaction surface; other site 522306006462 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 522306006463 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306006464 Erythromycin esterase homolog [General function prediction only]; Region: COG2312 522306006465 Erythromycin esterase; Region: Erythro_esteras; pfam05139 522306006466 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306006467 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 522306006468 active site 522306006469 ATP binding site [chemical binding]; other site 522306006470 substrate binding site [chemical binding]; other site 522306006471 activation loop (A-loop); other site 522306006472 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 522306006473 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 522306006474 dimerization interface [polypeptide binding]; other site 522306006475 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 522306006476 PAS fold; Region: PAS_4; pfam08448 522306006477 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 522306006478 PAS fold; Region: PAS_3; pfam08447 522306006479 putative active site [active] 522306006480 heme pocket [chemical binding]; other site 522306006481 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522306006482 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 522306006483 ATP binding site [chemical binding]; other site 522306006484 Mg2+ binding site [ion binding]; other site 522306006485 G-X-G motif; other site 522306006486 Response regulator receiver domain; Region: Response_reg; pfam00072 522306006487 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 522306006488 active site 522306006489 phosphorylation site [posttranslational modification] 522306006490 intermolecular recognition site; other site 522306006491 dimerization interface [polypeptide binding]; other site 522306006492 2-isopropylmalate synthase; Validated; Region: PRK03739 522306006493 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 522306006494 active site 522306006495 catalytic residues [active] 522306006496 metal binding site [ion binding]; metal-binding site 522306006497 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 522306006498 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 522306006499 Helix-turn-helix domains; Region: HTH; cl00088 522306006500 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 522306006501 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 522306006502 active site 522306006503 nucleophile elbow; other site 522306006504 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 522306006505 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 522306006506 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522306006507 FtsX-like permease family; Region: FtsX; cl15850 522306006508 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522306006509 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 522306006510 Walker A/P-loop; other site 522306006511 ATP binding site [chemical binding]; other site 522306006512 Q-loop/lid; other site 522306006513 ABC transporter signature motif; other site 522306006514 Walker B; other site 522306006515 D-loop; other site 522306006516 H-loop/switch region; other site 522306006517 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 522306006518 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522306006519 Zn2+ binding site [ion binding]; other site 522306006520 Mg2+ binding site [ion binding]; other site 522306006521 Transglycosylase SLT domain; Region: SLT_2; pfam13406 522306006522 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 522306006523 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 522306006524 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 522306006525 NAD(P) binding site [chemical binding]; other site 522306006526 catalytic residues [active] 522306006527 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 522306006528 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 522306006529 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 522306006530 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306006531 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 522306006532 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 522306006533 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 522306006534 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 522306006535 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 522306006536 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 522306006537 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 522306006538 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 522306006539 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 522306006540 Gram-negative bacterial tonB protein; Region: TonB; cl10048 522306006541 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 522306006542 Beta propeller domain; Region: Beta_propel; pfam09826 522306006543 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 522306006544 AMP-binding enzyme; Region: AMP-binding; cl15778 522306006545 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306006546 Predicted transcriptional regulator [Transcription]; Region: COG2378 522306006547 WYL domain; Region: WYL; cl14852 522306006548 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 522306006549 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006550 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 522306006551 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 522306006552 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cl09719 522306006553 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 522306006554 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 522306006555 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 522306006556 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 522306006557 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 522306006558 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 522306006559 Putative addiction module component; Region: Unstab_antitox; cl09921 522306006560 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 522306006561 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 522306006562 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 522306006563 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 522306006564 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 522306006565 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 522306006566 replicative DNA helicase; Provisional; Region: PRK07004 522306006567 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 522306006568 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 522306006569 Walker A motif; other site 522306006570 ATP binding site [chemical binding]; other site 522306006571 Walker B motif; other site 522306006572 DNA binding loops [nucleotide binding] 522306006573 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 522306006574 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 522306006575 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 522306006576 putative active site [active] 522306006577 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006578 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 522306006579 catalytic triad [active] 522306006580 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 522306006581 Haemolysin-III related; Region: HlyIII; cl03831 522306006582 trigger factor; Provisional; Region: tig; PRK01490 522306006583 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 522306006584 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 522306006585 Clp protease; Region: CLP_protease; pfam00574 522306006586 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 522306006587 oligomer interface [polypeptide binding]; other site 522306006588 active site residues [active] 522306006589 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 522306006590 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 522306006591 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 522306006592 Walker A motif; other site 522306006593 ATP binding site [chemical binding]; other site 522306006594 Walker B motif; other site 522306006595 arginine finger; other site 522306006596 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 522306006597 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 522306006598 Found in ATP-dependent protease La (LON); Region: LON; smart00464 522306006599 Found in ATP-dependent protease La (LON); Region: LON; smart00464 522306006600 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 522306006601 Walker A motif; other site 522306006602 ATP binding site [chemical binding]; other site 522306006603 Walker B motif; other site 522306006604 arginine finger; other site 522306006605 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 522306006606 SurA N-terminal domain; Region: SurA_N_3; cl07813 522306006607 periplasmic folding chaperone; Provisional; Region: PRK10788 522306006608 PPIC-type PPIASE domain; Region: Rotamase; cl08278 522306006609 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 522306006610 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 522306006611 ring oligomerisation interface [polypeptide binding]; other site 522306006612 ATP/Mg binding site [chemical binding]; other site 522306006613 stacking interactions; other site 522306006614 hinge regions; other site 522306006615 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 522306006616 oligomerisation interface [polypeptide binding]; other site 522306006617 mobile loop; other site 522306006618 roof hairpin; other site 522306006619 Transposase; Region: DEDD_Tnp_IS110; pfam01548 522306006620 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 522306006621 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 522306006622 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 522306006623 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 522306006624 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 522306006625 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 522306006626 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 522306006627 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 522306006628 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306006629 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306006630 Protein of unknown function (DUF3457); Region: DUF3457; cl08122 522306006631 HupF/HypC family; Region: HupF_HypC; cl00394 522306006632 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 522306006633 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 522306006634 putative substrate-binding site; other site 522306006635 nickel binding site [ion binding]; other site 522306006636 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 522306006637 Polysulphide reductase, NrfD; Region: NrfD; cl01295 522306006638 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 522306006639 AAA domain; Region: AAA_22; pfam13401 522306006640 Walker A motif; other site 522306006641 ATP binding site [chemical binding]; other site 522306006642 Walker B motif; other site 522306006643 arginine finger; other site 522306006644 Helix-turn-helix domains; Region: HTH; cl00088 522306006645 Integrase core domain; Region: rve; cl01316 522306006646 Integrase core domain; Region: rve_3; cl15866 522306006647 Polysulphide reductase, NrfD; Region: NrfD; cl01295 522306006648 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 522306006649 4Fe-4S binding domain; Region: Fer4; cl02805 522306006650 hydrogenase 2 small subunit; Provisional; Region: PRK10468 522306006651 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 522306006652 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 522306006653 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 522306006654 putative active site [active] 522306006655 heme pocket [chemical binding]; other site 522306006656 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 522306006657 dimer interface [polypeptide binding]; other site 522306006658 phosphorylation site [posttranslational modification] 522306006659 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 522306006660 ATP binding site [chemical binding]; other site 522306006661 Mg2+ binding site [ion binding]; other site 522306006662 G-X-G motif; other site 522306006663 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 522306006664 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 522306006665 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 522306006666 DNA translocase FtsK; Provisional; Region: PRK10263 522306006667 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006668 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 522306006669 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 522306006670 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 522306006671 ligand binding site [chemical binding]; other site 522306006672 flexible hinge region; other site 522306006673 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 522306006674 putative switch regulator; other site 522306006675 non-specific DNA interactions [nucleotide binding]; other site 522306006676 DNA binding site [nucleotide binding] 522306006677 sequence specific DNA binding site [nucleotide binding]; other site 522306006678 putative cAMP binding site [chemical binding]; other site 522306006679 thioredoxin reductase; Provisional; Region: PRK10262 522306006680 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306006681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 522306006682 Smr domain; Region: Smr; cl02619 522306006683 Nitrogen regulatory protein P-II; Region: P-II; cl00412 522306006684 Nitrogen regulatory protein P-II; Region: P-II; smart00938 522306006685 NAD synthetase; Provisional; Region: PRK13981 522306006686 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 522306006687 multimer interface [polypeptide binding]; other site 522306006688 active site 522306006689 catalytic triad [active] 522306006690 protein interface 1 [polypeptide binding]; other site 522306006691 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 522306006692 homodimer interface [polypeptide binding]; other site 522306006693 NAD binding pocket [chemical binding]; other site 522306006694 ATP binding pocket [chemical binding]; other site 522306006695 Mg binding site [ion binding]; other site 522306006696 active-site loop [active] 522306006697 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 522306006698 dimer interface [polypeptide binding]; other site 522306006699 substrate binding site [chemical binding]; other site 522306006700 metal binding sites [ion binding]; metal-binding site 522306006701 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 522306006702 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 522306006703 C-terminal domain interface [polypeptide binding]; other site 522306006704 GSH binding site (G-site) [chemical binding]; other site 522306006705 dimer interface [polypeptide binding]; other site 522306006706 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 522306006707 N-terminal domain interface [polypeptide binding]; other site 522306006708 dimer interface [polypeptide binding]; other site 522306006709 substrate binding pocket (H-site) [chemical binding]; other site 522306006710 Predicted ATPase [General function prediction only]; Region: COG3899 522306006711 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006712 Uncharacterized conserved protein [Function unknown]; Region: COG1262 522306006713 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306006714 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 522306006715 active site 522306006716 phosphorylation site [posttranslational modification] 522306006717 intermolecular recognition site; other site 522306006718 dimerization interface [polypeptide binding]; other site 522306006719 PAS fold; Region: PAS_3; pfam08447 522306006720 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 522306006721 putative active site [active] 522306006722 heme pocket [chemical binding]; other site 522306006723 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 522306006724 PAS domain; Region: PAS_9; pfam13426 522306006725 putative active site [active] 522306006726 heme pocket [chemical binding]; other site 522306006727 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306006728 metal binding site [ion binding]; metal-binding site 522306006729 active site 522306006730 I-site; other site 522306006731 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 522306006732 Response regulator receiver domain; Region: Response_reg; pfam00072 522306006733 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 522306006734 active site 522306006735 phosphorylation site [posttranslational modification] 522306006736 intermolecular recognition site; other site 522306006737 dimerization interface [polypeptide binding]; other site 522306006738 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 522306006739 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 522306006740 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 522306006741 ligand binding site [chemical binding]; other site 522306006742 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 522306006743 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 522306006744 maleylacetoacetate isomerase; Region: maiA; TIGR01262 522306006745 C-terminal domain interface [polypeptide binding]; other site 522306006746 GSH binding site (G-site) [chemical binding]; other site 522306006747 putative dimer interface [polypeptide binding]; other site 522306006748 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 522306006749 dimer interface [polypeptide binding]; other site 522306006750 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 522306006751 N-terminal domain interface [polypeptide binding]; other site 522306006752 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 522306006753 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 522306006754 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 522306006755 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 522306006756 Zn binding site [ion binding]; other site 522306006757 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 522306006758 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006759 Walker A/P-loop; other site 522306006760 ATP binding site [chemical binding]; other site 522306006761 Q-loop/lid; other site 522306006762 ABC transporter signature motif; other site 522306006763 Walker B; other site 522306006764 D-loop; other site 522306006765 H-loop/switch region; other site 522306006766 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 522306006767 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 522306006768 AsmA family; Region: AsmA; pfam05170 522306006769 AsmA-like C-terminal region; Region: AsmA_2; cl15864 522306006770 short chain dehydrogenase; Provisional; Region: PRK06180 522306006771 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 522306006772 NADP binding site [chemical binding]; other site 522306006773 active site 522306006774 steroid binding site; other site 522306006775 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306006776 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306006777 TIR domain; Region: TIR_2; cl15770 522306006778 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306006779 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 522306006780 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 522306006781 putative active site [active] 522306006782 putative NTP binding site [chemical binding]; other site 522306006783 putative nucleic acid binding site [nucleotide binding]; other site 522306006784 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306006785 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306006786 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306006787 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306006788 TIR domain; Region: TIR_2; cl15770 522306006789 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306006790 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 522306006791 putative heme binding pocket [chemical binding]; other site 522306006792 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 522306006793 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 522306006794 Binuclear center (active site) [active] 522306006795 K-pathway; other site 522306006796 Putative proton exit pathway; other site 522306006797 Putative water exit pathway; other site 522306006798 Predicted transcriptional regulator [Transcription]; Region: COG1959 522306006799 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522306006800 DNA-binding site [nucleotide binding]; DNA binding site 522306006801 High-affinity nickel-transport protein; Region: NicO; cl00964 522306006802 High-affinity nickel-transport protein; Region: NicO; cl00964 522306006803 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 522306006804 putative homotetramer interface [polypeptide binding]; other site 522306006805 putative homodimer interface [polypeptide binding]; other site 522306006806 putative metal binding site [ion binding]; other site 522306006807 putative homodimer-homodimer interface [polypeptide binding]; other site 522306006808 putative allosteric switch controlling residues; other site 522306006809 Chromate transporter; Region: Chromate_transp; pfam02417 522306006810 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 522306006811 Chromate transporter; Region: Chromate_transp; pfam02417 522306006812 excinuclease ABC subunit B; Provisional; Region: PRK05298 522306006813 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 522306006814 ATP binding site [chemical binding]; other site 522306006815 putative Mg++ binding site [ion binding]; other site 522306006816 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 522306006817 nucleotide binding region [chemical binding]; other site 522306006818 ATP-binding site [chemical binding]; other site 522306006819 Ultra-violet resistance protein B; Region: UvrB; pfam12344 522306006820 UvrB/uvrC motif; Region: UVR; pfam02151 522306006821 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 522306006822 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 522306006823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306006824 homodimer interface [polypeptide binding]; other site 522306006825 catalytic residue [active] 522306006826 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 522306006827 AsmA-like C-terminal region; Region: AsmA_2; cl15864 522306006828 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522306006829 Zn2+ binding site [ion binding]; other site 522306006830 Mg2+ binding site [ion binding]; other site 522306006831 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522306006832 Zn2+ binding site [ion binding]; other site 522306006833 Mg2+ binding site [ion binding]; other site 522306006834 glycerol kinase; Provisional; Region: glpK; PRK00047 522306006835 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 522306006836 N- and C-terminal domain interface [polypeptide binding]; other site 522306006837 active site 522306006838 MgATP binding site [chemical binding]; other site 522306006839 catalytic site [active] 522306006840 metal binding site [ion binding]; metal-binding site 522306006841 glycerol binding site [chemical binding]; other site 522306006842 homotetramer interface [polypeptide binding]; other site 522306006843 homodimer interface [polypeptide binding]; other site 522306006844 FBP binding site [chemical binding]; other site 522306006845 protein IIAGlc interface [polypeptide binding]; other site 522306006846 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522306006847 Helix-turn-helix domains; Region: HTH; cl00088 522306006848 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 522306006849 Ligand binding site [chemical binding]; other site 522306006850 Electron transfer flavoprotein domain; Region: ETF; pfam01012 522306006851 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 522306006852 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 522306006853 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 522306006854 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 522306006855 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 522306006856 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 522306006857 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 522306006858 active site 522306006859 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 522306006860 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 522306006861 active site 522306006862 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 522306006863 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 522306006864 AMP-binding enzyme; Region: AMP-binding; cl15778 522306006865 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306006866 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 522306006867 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 522306006868 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 522306006869 ABC transporter; Region: ABC_tran_2; pfam12848 522306006870 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 522306006871 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522306006872 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 522306006873 active site 522306006874 phosphorylation site [posttranslational modification] 522306006875 intermolecular recognition site; other site 522306006876 dimerization interface [polypeptide binding]; other site 522306006877 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 522306006878 DNA binding site [nucleotide binding] 522306006879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 522306006880 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 522306006881 putative peptidoglycan binding site; other site 522306006882 FecR protein; Region: FecR; pfam04773 522306006883 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 522306006884 CHASE2 domain; Region: CHASE2; cl01732 522306006885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522306006886 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522306006887 dimer interface [polypeptide binding]; other site 522306006888 phosphorylation site [posttranslational modification] 522306006889 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 522306006890 ATP binding site [chemical binding]; other site 522306006891 Mg2+ binding site [ion binding]; other site 522306006892 G-X-G motif; other site 522306006893 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 522306006894 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 522306006895 tetramer interface [polypeptide binding]; other site 522306006896 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306006897 catalytic residue [active] 522306006898 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 522306006899 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 522306006900 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 522306006901 active site 522306006902 Zn binding site [ion binding]; other site 522306006903 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 522306006904 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 522306006905 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 522306006906 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306006907 metal binding site [ion binding]; metal-binding site 522306006908 active site 522306006909 I-site; other site 522306006910 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 522306006911 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 522306006912 FMN binding site [chemical binding]; other site 522306006913 active site 522306006914 catalytic residues [active] 522306006915 substrate binding site [chemical binding]; other site 522306006916 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306006917 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 522306006918 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 522306006919 substrate binding site [chemical binding]; other site 522306006920 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 522306006921 substrate binding site [chemical binding]; other site 522306006922 ligand binding site [chemical binding]; other site 522306006923 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306006924 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 522306006925 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 522306006926 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 522306006927 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 522306006928 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306006929 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306006930 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 522306006931 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 522306006932 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 522306006933 Transcriptional activator [Transcription]; Region: ChrR; COG3806 522306006934 Cupin domain; Region: Cupin_2; cl09118 522306006935 Cupin domain; Region: Cupin_2; cl09118 522306006936 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 522306006937 oligomeric interface; other site 522306006938 putative active site [active] 522306006939 homodimer interface [polypeptide binding]; other site 522306006940 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 522306006941 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306006942 CHAT domain; Region: CHAT; pfam12770 522306006943 Domain of unknown function (DUF4071); Region: DUF4071; pfam13281 522306006944 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306006945 TPR motif; other site 522306006946 binding surface 522306006947 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 522306006948 active site 522306006949 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 522306006950 enoyl-CoA hydratase; Provisional; Region: PRK06142 522306006951 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 522306006952 substrate binding site [chemical binding]; other site 522306006953 oxyanion hole (OAH) forming residues; other site 522306006954 trimer interface [polypeptide binding]; other site 522306006955 Membrane transport protein; Region: Mem_trans; cl09117 522306006956 GTP cyclohydrolase I; Provisional; Region: PLN03044 522306006957 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 522306006958 active site 522306006959 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 522306006960 FMN binding site [chemical binding]; other site 522306006961 substrate binding site [chemical binding]; other site 522306006962 putative catalytic residue [active] 522306006963 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 522306006964 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 522306006965 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 522306006966 malate dehydrogenase; Provisional; Region: PRK05442 522306006967 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 522306006968 NAD(P) binding site [chemical binding]; other site 522306006969 dimer interface [polypeptide binding]; other site 522306006970 malate binding site [chemical binding]; other site 522306006971 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 522306006972 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522306006973 DNA-binding site [nucleotide binding]; DNA binding site 522306006974 UTRA domain; Region: UTRA; cl01230 522306006975 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 522306006976 Iron-sulfur protein interface; other site 522306006977 proximal quinone binding site [chemical binding]; other site 522306006978 SdhD (CybS) interface [polypeptide binding]; other site 522306006979 proximal heme binding site [chemical binding]; other site 522306006980 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 522306006981 SdhC subunit interface [polypeptide binding]; other site 522306006982 proximal heme binding site [chemical binding]; other site 522306006983 cardiolipin binding site; other site 522306006984 Iron-sulfur protein interface; other site 522306006985 proximal quinone binding site [chemical binding]; other site 522306006986 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 522306006987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306006988 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 522306006989 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 522306006990 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 522306006991 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 522306006992 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 522306006993 dimer interface [polypeptide binding]; other site 522306006994 Citrate synthase; Region: Citrate_synt; pfam00285 522306006995 active site 522306006996 citrylCoA binding site [chemical binding]; other site 522306006997 NADH binding [chemical binding]; other site 522306006998 cationic pore residues; other site 522306006999 oxalacetate/citrate binding site [chemical binding]; other site 522306007000 coenzyme A binding site [chemical binding]; other site 522306007001 catalytic triad [active] 522306007002 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 522306007003 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 522306007004 TPP-binding site [chemical binding]; other site 522306007005 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 522306007006 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 522306007007 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 522306007008 E3 interaction surface; other site 522306007009 lipoyl attachment site [posttranslational modification]; other site 522306007010 e3 binding domain; Region: E3_binding; pfam02817 522306007011 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 522306007012 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 522306007013 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306007014 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 522306007015 PEP-CTERM motif; Region: VPEP; cl15443 522306007016 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306007017 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 522306007018 Transcriptional regulators [Transcription]; Region: MarR; COG1846 522306007019 Helix-turn-helix domains; Region: HTH; cl00088 522306007020 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 522306007021 hydrophobic ligand binding site; other site 522306007022 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 522306007023 putative catalytic site [active] 522306007024 putative metal binding site [ion binding]; other site 522306007025 putative phosphate binding site [ion binding]; other site 522306007026 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 522306007027 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306007028 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 522306007029 AzlC protein; Region: AzlC; cl00570 522306007030 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 522306007031 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 522306007032 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 522306007033 heat shock protein 90; Provisional; Region: PRK05218 522306007034 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 522306007035 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 522306007036 putative active site [active] 522306007037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007038 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 522306007039 Type II/IV secretion system protein; Region: T2SE; pfam00437 522306007040 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 522306007041 Walker A motif; other site 522306007042 ATP binding site [chemical binding]; other site 522306007043 Walker B motif; other site 522306007044 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 522306007045 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 522306007046 dimer interface [polypeptide binding]; other site 522306007047 active site 522306007048 heme binding site [chemical binding]; other site 522306007049 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 522306007050 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 522306007051 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 522306007052 ATP binding site [chemical binding]; other site 522306007053 putative Mg++ binding site [ion binding]; other site 522306007054 Family description; Region: UvrD_C_2; cl15862 522306007055 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 522306007056 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 522306007057 Family description; Region: UvrD_C_2; cl15862 522306007058 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 522306007059 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 522306007060 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 522306007061 LysE type translocator; Region: LysE; cl00565 522306007062 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522306007063 Zn2+ binding site [ion binding]; other site 522306007064 Mg2+ binding site [ion binding]; other site 522306007065 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 522306007066 TIR domain; Region: TIR_2; cl15770 522306007067 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 522306007068 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 522306007069 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 522306007070 LysR family transcriptional regulator; Provisional; Region: PRK14997 522306007071 Helix-turn-helix domains; Region: HTH; cl00088 522306007072 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 522306007073 putative effector binding pocket; other site 522306007074 dimerization interface [polypeptide binding]; other site 522306007075 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 522306007076 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 522306007077 putative substrate translocation pore; other site 522306007078 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 522306007079 CoenzymeA binding site [chemical binding]; other site 522306007080 subunit interaction site [polypeptide binding]; other site 522306007081 PHB binding site; other site 522306007082 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 522306007083 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 522306007084 putative active site [active] 522306007085 metal binding site [ion binding]; metal-binding site 522306007086 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 522306007087 Uncharacterized conserved protein [Function unknown]; Region: COG3391 522306007088 NHL repeat; Region: NHL; pfam01436 522306007089 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; cl01776 522306007090 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 522306007091 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 522306007092 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 522306007093 DNA-binding site [nucleotide binding]; DNA binding site 522306007094 RNA-binding motif; other site 522306007095 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 522306007096 DNA-binding site [nucleotide binding]; DNA binding site 522306007097 RNA-binding motif; other site 522306007098 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306007099 binding surface 522306007100 TPR motif; other site 522306007101 TPR repeat; Region: TPR_11; pfam13414 522306007102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007103 GTP/Mg2+ binding site [chemical binding]; other site 522306007104 G4 box; other site 522306007105 G5 box; other site 522306007106 Archaeal ATPase; Region: Arch_ATPase; pfam01637 522306007107 G1 box; other site 522306007108 Switch I region; other site 522306007109 G2 box; other site 522306007110 MAPEG family; Region: MAPEG; cl09190 522306007111 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 522306007112 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 522306007113 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 522306007114 PEP-CTERM motif; Region: VPEP; cl15443 522306007115 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 522306007116 Helix-turn-helix domains; Region: HTH; cl00088 522306007117 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 522306007118 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 522306007119 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 522306007120 active site 522306007121 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 522306007122 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 522306007123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007124 CoA-ligase; Region: Ligase_CoA; cl02894 522306007125 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306007126 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 522306007127 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306007128 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 522306007129 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 522306007130 ABC transporter ATPase component; Reviewed; Region: PRK11147 522306007131 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007132 Walker A/P-loop; other site 522306007133 ATP binding site [chemical binding]; other site 522306007134 Q-loop/lid; other site 522306007135 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 522306007136 ABC transporter; Region: ABC_tran_2; pfam12848 522306007137 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 522306007138 Benzoate membrane transport protein; Region: BenE; pfam03594 522306007139 benzoate transporter; Region: benE; TIGR00843 522306007140 hypothetical protein; Provisional; Region: PRK10279 522306007141 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 522306007142 active site 522306007143 nucleophile elbow; other site 522306007144 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 522306007145 LabA_like proteins; Region: LabA_like/DUF88; cl10034 522306007146 putative metal binding site [ion binding]; other site 522306007147 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 522306007148 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 522306007149 tetramerization interface [polypeptide binding]; other site 522306007150 active site 522306007151 pantoate--beta-alanine ligase; Region: panC; TIGR00018 522306007152 Pantoate-beta-alanine ligase; Region: PanC; cd00560 522306007153 active site 522306007154 ATP-binding site [chemical binding]; other site 522306007155 pantoate-binding site; other site 522306007156 HXXH motif; other site 522306007157 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 522306007158 oligomerization interface [polypeptide binding]; other site 522306007159 active site 522306007160 metal binding site [ion binding]; metal-binding site 522306007161 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306007162 dimer interface [polypeptide binding]; other site 522306007163 putative CheW interface [polypeptide binding]; other site 522306007164 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 522306007165 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 522306007166 catalytic center binding site [active] 522306007167 ATP binding site [chemical binding]; other site 522306007168 poly(A) polymerase; Region: pcnB; TIGR01942 522306007169 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 522306007170 active site 522306007171 NTP binding site [chemical binding]; other site 522306007172 metal binding triad [ion binding]; metal-binding site 522306007173 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 522306007174 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 522306007175 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 522306007176 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306007177 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007178 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 522306007179 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 522306007180 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 522306007181 dimerization interface [polypeptide binding]; other site 522306007182 putative ATP binding site [chemical binding]; other site 522306007183 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306007184 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306007185 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306007186 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 522306007187 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 522306007188 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 522306007189 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306007190 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306007191 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 522306007192 active site 522306007193 substrate binding site [chemical binding]; other site 522306007194 catalytic site [active] 522306007195 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 522306007196 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 522306007197 GIY-YIG motif/motif A; other site 522306007198 active site 522306007199 catalytic site [active] 522306007200 metal binding site [ion binding]; metal-binding site 522306007201 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 522306007202 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 522306007203 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 522306007204 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 522306007205 active site 522306007206 PilZ domain; Region: PilZ; cl01260 522306007207 DNA polymerase III subunit delta'; Validated; Region: PRK06964 522306007208 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007209 thymidylate kinase; Validated; Region: tmk; PRK00698 522306007210 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 522306007211 TMP-binding site; other site 522306007212 ATP-binding site [chemical binding]; other site 522306007213 YceG-like family; Region: YceG; pfam02618 522306007214 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 522306007215 dimerization interface [polypeptide binding]; other site 522306007216 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 522306007217 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 522306007218 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 522306007219 NRDE protein; Region: NRDE; cl01315 522306007220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 522306007221 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 522306007222 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 522306007223 nucleoside/Zn binding site; other site 522306007224 dimer interface [polypeptide binding]; other site 522306007225 catalytic motif [active] 522306007226 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 522306007227 ligand binding site [chemical binding]; other site 522306007228 flexible hinge region; other site 522306007229 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 522306007230 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 522306007231 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 522306007232 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 522306007233 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 522306007234 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 522306007235 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306007236 TPR repeat; Region: TPR_11; pfam13414 522306007237 binding surface 522306007238 TPR motif; other site 522306007239 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306007240 binding surface 522306007241 TPR motif; other site 522306007242 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306007243 binding surface 522306007244 TPR repeat; Region: TPR_11; pfam13414 522306007245 TPR motif; other site 522306007246 TPR repeat; Region: TPR_11; pfam13414 522306007247 TPR repeat; Region: TPR_11; pfam13414 522306007248 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306007249 binding surface 522306007250 TPR motif; other site 522306007251 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 522306007252 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 522306007253 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306007254 binding surface 522306007255 TPR motif; other site 522306007256 Cytochrome c; Region: Cytochrom_C; cl11414 522306007257 Cytochrome c; Region: Cytochrom_C; cl11414 522306007258 Cytochrome c; Region: Cytochrom_C; cl11414 522306007259 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 522306007260 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 522306007261 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 522306007262 UbiA prenyltransferase family; Region: UbiA; cl00337 522306007263 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; cd02933 522306007264 FMN binding site [chemical binding]; other site 522306007265 active site 522306007266 substrate binding site [chemical binding]; other site 522306007267 catalytic residue [active] 522306007268 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 522306007269 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 522306007270 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 522306007271 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 522306007272 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 522306007273 ATP binding site [chemical binding]; other site 522306007274 putative Mg++ binding site [ion binding]; other site 522306007275 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 522306007276 nucleotide binding region [chemical binding]; other site 522306007277 ATP-binding site [chemical binding]; other site 522306007278 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 522306007279 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 522306007280 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 522306007281 active site 522306007282 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 522306007283 putative active site [active] 522306007284 putative catalytic site [active] 522306007285 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 522306007286 active site 2 [active] 522306007287 active site 1 [active] 522306007288 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 522306007289 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 522306007290 B12 binding site [chemical binding]; other site 522306007291 cobalt ligand [ion binding]; other site 522306007292 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 522306007293 Walker A; other site 522306007294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007295 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 522306007296 NAD(P) binding site [chemical binding]; other site 522306007297 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 522306007298 FOG: CBS domain [General function prediction only]; Region: COG0517 522306007299 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 522306007300 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 522306007301 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 522306007302 NAD(P) binding site [chemical binding]; other site 522306007303 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 522306007304 dimer interaction site [polypeptide binding]; other site 522306007305 substrate-binding tunnel; other site 522306007306 active site 522306007307 catalytic site [active] 522306007308 substrate binding site [chemical binding]; other site 522306007309 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 522306007310 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 522306007311 active site 2 [active] 522306007312 active site 1 [active] 522306007313 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 522306007314 CoA-transferase family III; Region: CoA_transf_3; pfam02515 522306007315 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 522306007316 CoA-transferase family III; Region: CoA_transf_3; pfam02515 522306007317 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 522306007318 CoA-transferase family III; Region: CoA_transf_3; pfam02515 522306007319 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 522306007320 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 522306007321 putative active site [active] 522306007322 putative catalytic site [active] 522306007323 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 522306007324 putative active site [active] 522306007325 putative catalytic site [active] 522306007326 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 522306007327 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 522306007328 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 522306007329 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 522306007330 dimer interface [polypeptide binding]; other site 522306007331 PYR/PP interface [polypeptide binding]; other site 522306007332 TPP binding site [chemical binding]; other site 522306007333 substrate binding site [chemical binding]; other site 522306007334 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 522306007335 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 522306007336 TPP-binding site [chemical binding]; other site 522306007337 putative dimer interface [polypeptide binding]; other site 522306007338 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 522306007339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007340 4Fe-4S binding domain; Region: Fer4; cl02805 522306007341 pyruvate phosphate dikinase; Provisional; Region: PRK09279 522306007342 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 522306007343 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 522306007344 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 522306007345 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 522306007346 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 522306007347 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 522306007348 Preprotein translocase subunit; Region: YajC; cl00806 522306007349 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 522306007350 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 522306007351 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 522306007352 Protein export membrane protein; Region: SecD_SecF; cl14618 522306007353 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 522306007354 Protein export membrane protein; Region: SecD_SecF; cl14618 522306007355 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 522306007356 Cytochrome C'; Region: Cytochrom_C_2; cl01610 522306007357 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 522306007358 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 522306007359 adenylosuccinate lyase; Provisional; Region: PRK09285 522306007360 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 522306007361 tetramer interface [polypeptide binding]; other site 522306007362 active site 522306007363 putative glutathione S-transferase; Provisional; Region: PRK10357 522306007364 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 522306007365 putative C-terminal domain interface [polypeptide binding]; other site 522306007366 putative GSH binding site (G-site) [chemical binding]; other site 522306007367 putative dimer interface [polypeptide binding]; other site 522306007368 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 522306007369 dimer interface [polypeptide binding]; other site 522306007370 N-terminal domain interface [polypeptide binding]; other site 522306007371 putative substrate binding pocket (H-site) [chemical binding]; other site 522306007372 flagellar motor protein MotB; Validated; Region: motB; PRK09041 522306007373 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 522306007374 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306007375 ligand binding site [chemical binding]; other site 522306007376 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 522306007377 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 522306007378 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 522306007379 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 522306007380 nudix motif; other site 522306007381 Helix-turn-helix domains; Region: HTH; cl00088 522306007382 Winged helix-turn helix; Region: HTH_29; pfam13551 522306007383 Integrase core domain; Region: rve; cl01316 522306007384 Gram-negative bacterial tonB protein; Region: TonB; cl10048 522306007385 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 522306007386 FixH; Region: FixH; cl01254 522306007387 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 522306007388 4Fe-4S binding domain; Region: Fer4_5; pfam12801 522306007389 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 522306007390 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 522306007391 Cytochrome c; Region: Cytochrom_C; cl11414 522306007392 Cytochrome c; Region: Cytochrom_C; cl11414 522306007393 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 522306007394 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 522306007395 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 522306007396 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 522306007397 Low-spin heme binding site [chemical binding]; other site 522306007398 Putative water exit pathway; other site 522306007399 Binuclear center (active site) [active] 522306007400 Putative proton exit pathway; other site 522306007401 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 522306007402 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 522306007403 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522306007404 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 522306007405 metal-binding site [ion binding] 522306007406 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306007407 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306007408 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 522306007409 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 522306007410 active site 522306007411 Riboflavin kinase; Region: Flavokinase; cl03312 522306007412 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 522306007413 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522306007414 active site 522306007415 HIGH motif; other site 522306007416 nucleotide binding site [chemical binding]; other site 522306007417 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 522306007418 active site 522306007419 KMSKS motif; other site 522306007420 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 522306007421 tRNA binding surface [nucleotide binding]; other site 522306007422 anticodon binding site; other site 522306007423 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 522306007424 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 522306007425 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 522306007426 LytB protein; Region: LYTB; cl00507 522306007427 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 522306007428 Cupin domain; Region: Cupin_2; cl09118 522306007429 hypothetical protein; Provisional; Region: PRK01254 522306007430 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 522306007431 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 522306007432 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 522306007433 Transcriptional regulators [Transcription]; Region: GntR; COG1802 522306007434 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522306007435 DNA-binding site [nucleotide binding]; DNA binding site 522306007436 FCD domain; Region: FCD; cl11656 522306007437 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 522306007438 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 522306007439 dimerization interface [polypeptide binding]; other site 522306007440 ligand binding site [chemical binding]; other site 522306007441 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 522306007442 Proline dehydrogenase; Region: Pro_dh; cl03282 522306007443 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 522306007444 Glutamate binding site [chemical binding]; other site 522306007445 NAD binding site [chemical binding]; other site 522306007446 catalytic residues [active] 522306007447 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 522306007448 Flavoprotein; Region: Flavoprotein; cl08021 522306007449 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 522306007450 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 522306007451 trimer interface [polypeptide binding]; other site 522306007452 active site 522306007453 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 522306007454 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 522306007455 Di-iron ligands [ion binding]; other site 522306007456 Transposase; Region: DDE_Tnp_ISL3; pfam01610 522306007457 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 522306007458 TM-ABC transporter signature motif; other site 522306007459 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 522306007460 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 522306007461 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 522306007462 TM-ABC transporter signature motif; other site 522306007463 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 522306007464 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 522306007465 Walker A/P-loop; other site 522306007466 ATP binding site [chemical binding]; other site 522306007467 Q-loop/lid; other site 522306007468 ABC transporter signature motif; other site 522306007469 Walker B; other site 522306007470 D-loop; other site 522306007471 H-loop/switch region; other site 522306007472 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 522306007473 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 522306007474 Walker A/P-loop; other site 522306007475 ATP binding site [chemical binding]; other site 522306007476 Q-loop/lid; other site 522306007477 ABC transporter signature motif; other site 522306007478 Walker B; other site 522306007479 D-loop; other site 522306007480 H-loop/switch region; other site 522306007481 EamA-like transporter family; Region: EamA; cl01037 522306007482 putative diguanylate cyclase; Provisional; Region: PRK09776 522306007483 PAS domain S-box; Region: sensory_box; TIGR00229 522306007484 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 522306007485 putative active site [active] 522306007486 heme pocket [chemical binding]; other site 522306007487 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 522306007488 PAS domain; Region: PAS_9; pfam13426 522306007489 putative active site [active] 522306007490 heme pocket [chemical binding]; other site 522306007491 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306007492 metal binding site [ion binding]; metal-binding site 522306007493 active site 522306007494 I-site; other site 522306007495 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 522306007496 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522306007497 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 522306007498 active site 522306007499 phosphorylation site [posttranslational modification] 522306007500 intermolecular recognition site; other site 522306007501 dimerization interface [polypeptide binding]; other site 522306007502 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 522306007503 PAS domain; Region: PAS_9; pfam13426 522306007504 putative active site [active] 522306007505 heme pocket [chemical binding]; other site 522306007506 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306007507 metal binding site [ion binding]; metal-binding site 522306007508 active site 522306007509 I-site; other site 522306007510 Response regulator receiver domain; Region: Response_reg; pfam00072 522306007511 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 522306007512 active site 522306007513 phosphorylation site [posttranslational modification] 522306007514 intermolecular recognition site; other site 522306007515 dimerization interface [polypeptide binding]; other site 522306007516 Response regulator receiver domain; Region: Response_reg; pfam00072 522306007517 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 522306007518 active site 522306007519 phosphorylation site [posttranslational modification] 522306007520 intermolecular recognition site; other site 522306007521 dimerization interface [polypeptide binding]; other site 522306007522 CHASE domain; Region: CHASE; cl01369 522306007523 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 522306007524 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 522306007525 ATP binding site [chemical binding]; other site 522306007526 Mg2+ binding site [ion binding]; other site 522306007527 G-X-G motif; other site 522306007528 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522306007529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 522306007530 active site 522306007531 phosphorylation site [posttranslational modification] 522306007532 intermolecular recognition site; other site 522306007533 putative diguanylate cyclase; Provisional; Region: PRK09776 522306007534 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 522306007535 dimer interface [polypeptide binding]; other site 522306007536 phosphorylation site [posttranslational modification] 522306007537 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 522306007538 ATP binding site [chemical binding]; other site 522306007539 Mg2+ binding site [ion binding]; other site 522306007540 G-X-G motif; other site 522306007541 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 522306007542 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 522306007543 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306007544 catalytic residue [active] 522306007545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007546 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 522306007547 L-serine binding site [chemical binding]; other site 522306007548 ACT domain interface; other site 522306007549 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 522306007550 catalytic core [active] 522306007551 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 522306007552 nudix motif; other site 522306007553 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 522306007554 FtsX-like permease family; Region: FtsX; cl15850 522306007555 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522306007556 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 522306007557 substrate binding pocket [chemical binding]; other site 522306007558 membrane-bound complex binding site; other site 522306007559 hinge residues; other site 522306007560 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306007561 metal binding site [ion binding]; metal-binding site 522306007562 active site 522306007563 I-site; other site 522306007564 Ion channel; Region: Ion_trans_2; cl11596 522306007565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007567 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 ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 522306007568 putative ADP-ribose binding site [chemical binding]; other site 522306007569 putative active site [active] 522306007570 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 522306007571 active site residue [active] 522306007572 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 522306007573 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 522306007574 YcfA-like protein; Region: YcfA; cl00752 522306007575 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 522306007576 putative metal binding site [ion binding]; other site 522306007577 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 522306007578 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 522306007579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007580 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306007581 4Fe-4S binding domain; Region: Fer4; cl02805 522306007582 4Fe-4S binding domain; Region: Fer4; cl02805 522306007583 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 522306007584 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 522306007585 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 522306007586 dimer interface [polypeptide binding]; other site 522306007587 PYR/PP interface [polypeptide binding]; other site 522306007588 TPP binding site [chemical binding]; other site 522306007589 substrate binding site [chemical binding]; other site 522306007590 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 522306007591 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 522306007592 TPP-binding site [chemical binding]; other site 522306007593 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 522306007594 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 522306007595 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 522306007596 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 522306007597 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 522306007598 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 522306007599 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 522306007600 putative NAD(P) binding site [chemical binding]; other site 522306007601 active site 522306007602 Helix-turn-helix domain; Region: HTH_18; pfam12833 522306007603 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522306007604 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306007605 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306007606 dimer interface [polypeptide binding]; other site 522306007607 putative CheW interface [polypeptide binding]; other site 522306007608 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 522306007609 NlpE N-terminal domain; Region: NlpE; cl01138 522306007610 META domain; Region: META; cl01245 522306007611 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 522306007612 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 522306007613 S-adenosylmethionine binding site [chemical binding]; other site 522306007614 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 522306007615 dimer interface [polypeptide binding]; other site 522306007616 substrate binding site [chemical binding]; other site 522306007617 metal binding site [ion binding]; metal-binding site 522306007618 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 522306007619 Phosphopantetheine attachment site; Region: PP-binding; cl09936 522306007620 FkbH-like domain; Region: FkbH; TIGR01686 522306007621 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306007622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007623 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 522306007624 octamerization interface [polypeptide binding]; other site 522306007625 diferric-oxygen binding site [ion binding]; other site 522306007626 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 522306007627 PAS domain; Region: PAS_9; pfam13426 522306007628 putative active site [active] 522306007629 heme pocket [chemical binding]; other site 522306007630 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306007631 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 522306007632 PAS domain; Region: PAS_9; pfam13426 522306007633 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 522306007634 putative active site [active] 522306007635 heme pocket [chemical binding]; other site 522306007636 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 522306007637 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306007638 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 522306007639 dimer interface [polypeptide binding]; other site 522306007640 phosphorylation site [posttranslational modification] 522306007641 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 522306007642 ATP binding site [chemical binding]; other site 522306007643 Mg2+ binding site [ion binding]; other site 522306007644 G-X-G motif; other site 522306007645 Response regulator receiver domain; Region: Response_reg; pfam00072 522306007646 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 522306007647 active site 522306007648 phosphorylation site [posttranslational modification] 522306007649 intermolecular recognition site; other site 522306007650 dimerization interface [polypeptide binding]; other site 522306007651 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 522306007652 PAS domain S-box; Region: sensory_box; TIGR00229 522306007653 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 522306007654 putative active site [active] 522306007655 heme pocket [chemical binding]; other site 522306007656 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 522306007657 dimer interface [polypeptide binding]; other site 522306007658 phosphorylation site [posttranslational modification] 522306007659 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 522306007660 ATP binding site [chemical binding]; other site 522306007661 Mg2+ binding site [ion binding]; other site 522306007662 G-X-G motif; other site 522306007663 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 522306007664 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 522306007665 active site 522306007666 phosphorylation site [posttranslational modification] 522306007667 intermolecular recognition site; other site 522306007668 dimerization interface [polypeptide binding]; other site 522306007669 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522306007670 Zn2+ binding site [ion binding]; other site 522306007671 Mg2+ binding site [ion binding]; other site 522306007672 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 522306007673 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522306007674 substrate binding pocket [chemical binding]; other site 522306007675 membrane-bound complex binding site; other site 522306007676 hinge residues; other site 522306007677 PAS domain; Region: PAS_9; pfam13426 522306007678 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 522306007679 putative active site [active] 522306007680 heme pocket [chemical binding]; other site 522306007681 PAS domain S-box; Region: sensory_box; TIGR00229 522306007682 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306007683 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 522306007684 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 522306007685 dimer interface [polypeptide binding]; other site 522306007686 phosphorylation site [posttranslational modification] 522306007687 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 522306007688 ATP binding site [chemical binding]; other site 522306007689 Mg2+ binding site [ion binding]; other site 522306007690 G-X-G motif; other site 522306007691 Response regulator receiver domain; Region: Response_reg; pfam00072 522306007692 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 522306007693 active site 522306007694 phosphorylation site [posttranslational modification] 522306007695 intermolecular recognition site; other site 522306007696 dimerization interface [polypeptide binding]; other site 522306007697 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 522306007698 active site 522306007699 catalytic triad [active] 522306007700 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 522306007701 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 522306007702 P-loop; other site 522306007703 Magnesium ion binding site [ion binding]; other site 522306007704 Restriction endonuclease; Region: Mrr_cat; cl00516 522306007705 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007706 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 522306007707 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 522306007708 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 522306007709 structural tetrad; other site 522306007710 FOG: WD40 repeat [General function prediction only]; Region: COG2319 522306007711 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 522306007712 structural tetrad; other site 522306007713 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 522306007714 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 522306007715 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 522306007716 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 522306007717 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 522306007718 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 522306007719 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 522306007720 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 522306007721 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 522306007722 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 522306007723 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306007724 CbiD; Region: CbiD; cl00828 522306007725 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 522306007726 Precorrin-8X methylmutase; Region: CbiC; pfam02570 522306007727 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 522306007728 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 522306007729 putative active site [active] 522306007730 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 522306007731 putative active site [active] 522306007732 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 522306007733 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 522306007734 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 522306007735 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007736 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 522306007737 catalytic triad [active] 522306007738 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 522306007739 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007740 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 522306007741 homodimer interface [polypeptide binding]; other site 522306007742 Walker A motif; other site 522306007743 ATP binding site [chemical binding]; other site 522306007744 hydroxycobalamin binding site [chemical binding]; other site 522306007745 Walker B motif; other site 522306007746 OsmC-like protein; Region: OsmC; cl00767 522306007747 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 522306007748 homotrimer interaction site [polypeptide binding]; other site 522306007749 zinc binding site [ion binding]; other site 522306007750 CDP-binding sites; other site 522306007751 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 522306007752 substrate binding site; other site 522306007753 dimer interface; other site 522306007754 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 522306007755 putative ligand binding pocket/active site [active] 522306007756 putative metal binding site [ion binding]; other site 522306007757 AMMECR1; Region: AMMECR1; cl00911 522306007758 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 522306007759 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_1; cd09127 522306007760 PLD-like domain; Region: PLDc_2; pfam13091 522306007761 putative active site [active] 522306007762 putative catalytic site [active] 522306007763 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_2; cd09128 522306007764 PLD-like domain; Region: PLDc_2; pfam13091 522306007765 putative active site [active] 522306007766 putative catalytic site [active] 522306007767 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 522306007768 phosphopeptide binding site; other site 522306007769 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 522306007770 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 522306007771 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 522306007772 DNA-K related protein; Region: DUF3731; pfam12531 522306007773 Late embryogenesis abundant protein; Region: LEA_2; cl12118 522306007774 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 522306007775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007777 2-hydroxy-3-oxopropionate reductase; Region: tartro_sem_red; TIGR01505 522306007778 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 522306007779 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 522306007780 RF-1 domain; Region: RF-1; cl02875 522306007781 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 522306007782 Predicted dehydrogenase [General function prediction only]; Region: COG0579 522306007783 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 522306007784 Protein of unknown function (DUF328); Region: DUF328; cl01143 522306007785 Site-specific recombinase; Region: SpecificRecomb; cl15411 522306007786 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 522306007787 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 522306007788 putative metal binding site [ion binding]; other site 522306007789 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; cd00198 522306007790 metal ion-dependent adhesion site (MIDAS); other site 522306007791 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 522306007792 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 522306007793 DNA repair protein RadA; Provisional; Region: PRK11823 522306007794 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 522306007795 Walker A motif/ATP binding site; other site 522306007796 ATP binding site [chemical binding]; other site 522306007797 Walker B motif; other site 522306007798 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 522306007799 alanine racemase; Reviewed; Region: alr; PRK00053 522306007800 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 522306007801 active site 522306007802 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 522306007803 substrate binding site [chemical binding]; other site 522306007804 catalytic residues [active] 522306007805 dimer interface [polypeptide binding]; other site 522306007806 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 522306007807 Helix-turn-helix domains; Region: HTH; cl00088 522306007808 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 522306007809 putative dimerization interface [polypeptide binding]; other site 522306007810 lysophospholipid transporter LplT; Provisional; Region: PRK11195 522306007811 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 522306007812 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 522306007813 dimer interface [polypeptide binding]; other site 522306007814 PYR/PP interface [polypeptide binding]; other site 522306007815 TPP binding site [chemical binding]; other site 522306007816 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 522306007817 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 522306007818 TPP-binding site [chemical binding]; other site 522306007819 dimer interface [polypeptide binding]; other site 522306007820 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 522306007821 Helix-turn-helix domains; Region: HTH; cl00088 522306007822 Repair protein; Region: Repair_PSII; cl01535 522306007823 Repair protein; Region: Repair_PSII; cl01535 522306007824 LemA family; Region: LemA; cl00742 522306007825 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 522306007826 Fe-S cluster binding site [ion binding]; other site 522306007827 active site 522306007828 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 522306007829 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522306007830 Coenzyme A binding pocket [chemical binding]; other site 522306007831 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 522306007832 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 522306007833 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 522306007834 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 522306007835 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 522306007836 active site 522306007837 homodimer interface [polypeptide binding]; other site 522306007838 catalytic site [active] 522306007839 acceptor binding site [chemical binding]; other site 522306007840 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 522306007841 homodimer interface [polypeptide binding]; other site 522306007842 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 522306007843 active site pocket [active] 522306007844 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306007845 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306007846 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 522306007847 Protein export membrane protein; Region: SecD_SecF; cl14618 522306007848 enolase; Provisional; Region: eno; PRK00077 522306007849 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 522306007850 dimer interface [polypeptide binding]; other site 522306007851 metal binding site [ion binding]; metal-binding site 522306007852 substrate binding pocket [chemical binding]; other site 522306007853 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522306007854 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 522306007855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007856 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 522306007857 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 522306007858 dimerization interface [polypeptide binding]; other site 522306007859 putative DNA binding site [nucleotide binding]; other site 522306007860 putative Zn2+ binding site [ion binding]; other site 522306007861 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 522306007862 Membrane transport protein; Region: Mem_trans; cl09117 522306007863 FMN reductase; Validated; Region: fre; PRK08051 522306007864 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 522306007865 FAD binding pocket [chemical binding]; other site 522306007866 FAD binding motif [chemical binding]; other site 522306007867 phosphate binding motif [ion binding]; other site 522306007868 beta-alpha-beta structure motif; other site 522306007869 NAD binding pocket [chemical binding]; other site 522306007870 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 522306007871 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 522306007872 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 522306007873 alpha subunit interaction interface [polypeptide binding]; other site 522306007874 Walker A motif; other site 522306007875 ATP binding site [chemical binding]; other site 522306007876 Walker B motif; other site 522306007877 inhibitor binding site; inhibition site 522306007878 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 522306007879 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 522306007880 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 522306007881 ATP synthase A chain; Region: ATP-synt_A; cl00413 522306007882 ATP synthase subunit C; Region: ATP-synt_C; cl00466 522306007883 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 522306007884 Plant ATP synthase F0; Region: YMF19; cl07975 522306007885 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 522306007886 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007887 Walker A motif; other site 522306007888 ATP binding site [chemical binding]; other site 522306007889 Walker B motif; other site 522306007890 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 522306007891 putative homodimer interface [polypeptide binding]; other site 522306007892 putative active site [active] 522306007893 catalytic site [active] 522306007894 DEAD-like helicases superfamily; Region: DEXDc; smart00487 522306007895 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 522306007896 nucleotide binding region [chemical binding]; other site 522306007897 ATP-binding site [chemical binding]; other site 522306007898 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 522306007899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007900 Predicted ATPase [General function prediction only]; Region: COG4637 522306007901 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007902 Walker A/P-loop; other site 522306007903 ATP binding site [chemical binding]; other site 522306007904 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007905 Walker B; other site 522306007906 D-loop; other site 522306007907 H-loop/switch region; other site 522306007908 Predicted ATPase [General function prediction only]; Region: COG4637 522306007909 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007910 Walker A/P-loop; other site 522306007911 ATP binding site [chemical binding]; other site 522306007912 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 522306007913 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 522306007914 ATP synthase; Region: ATP-synt; cl00365 522306007915 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 522306007916 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 522306007917 catalytic residues [active] 522306007918 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 522306007919 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 522306007920 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 522306007921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007922 NAD(P) binding site [chemical binding]; other site 522306007923 active site 522306007924 lipid-transfer protein; Provisional; Region: PRK08256 522306007925 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 522306007926 active site 522306007927 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522306007928 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306007929 dimer interface [polypeptide binding]; other site 522306007930 putative CheW interface [polypeptide binding]; other site 522306007931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4318 522306007932 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 522306007933 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 522306007934 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 522306007935 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 522306007936 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 522306007937 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 522306007938 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 522306007939 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 522306007940 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306007941 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306007942 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306007943 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306007944 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306007945 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 522306007946 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306007947 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306007948 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 522306007949 Cadherin repeat-like domain; Region: CA_like; cl15786 522306007950 Ca2+ binding site [ion binding]; other site 522306007951 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 522306007952 Cadherin repeat-like domain; Region: CA_like; cl15786 522306007953 Ca2+ binding site [ion binding]; other site 522306007954 Cadherin repeat-like domain; Region: CA_like; cl15786 522306007955 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 522306007956 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 522306007957 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 522306007958 Cadherin repeat-like domain; Region: CA_like; cl15786 522306007959 Ca2+ binding site [ion binding]; other site 522306007960 Cadherin repeat-like domain; Region: CA_like; cl15786 522306007961 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 522306007962 Cadherin repeat-like domain; Region: CA_like; cl15786 522306007963 Ca2+ binding site [ion binding]; other site 522306007964 Cadherin-like repeat domain of alpha dystroglycan; Region: Dystroglycan_repeat; cd11303 522306007965 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 522306007966 Cadherin repeat-like domain; Region: CA_like; cl15786 522306007967 Ca2+ binding site [ion binding]; other site 522306007968 VCBS repeat; Region: VCBS_repeat; TIGR01965 522306007969 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 522306007970 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 522306007971 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306007972 Walker A/P-loop; other site 522306007973 ATP binding site [chemical binding]; other site 522306007974 Q-loop/lid; other site 522306007975 ABC transporter signature motif; other site 522306007976 Walker B; other site 522306007977 D-loop; other site 522306007978 H-loop/switch region; other site 522306007979 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 522306007980 Virulence protein [General function prediction only]; Region: COG3943 522306007981 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 522306007982 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522306007983 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 522306007984 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 522306007985 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 522306007986 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 522306007987 HsdM N-terminal domain; Region: HsdM_N; pfam12161 522306007988 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 522306007989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306007990 EamA-like transporter family; Region: EamA; cl01037 522306007991 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 522306007992 Helix-turn-helix domains; Region: HTH; cl00088 522306007993 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 522306007994 putative dimerization interface [polypeptide binding]; other site 522306007995 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 522306007996 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 522306007997 FAD binding pocket [chemical binding]; other site 522306007998 FAD binding motif [chemical binding]; other site 522306007999 phosphate binding motif [ion binding]; other site 522306008000 beta-alpha-beta structure motif; other site 522306008001 NAD binding pocket [chemical binding]; other site 522306008002 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 522306008003 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 522306008004 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 522306008005 intersubunit interface [polypeptide binding]; other site 522306008006 active site 522306008007 Zn2+ binding site [ion binding]; other site 522306008008 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 522306008009 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 522306008010 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 522306008011 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 522306008012 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306008013 Antimicrobial peptide resistance and lipid A acylation protein PagP; Region: PagP; cl06181 522306008014 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306008015 Dynamin family; Region: Dynamin_N; pfam00350 522306008016 G1 box; other site 522306008017 GTP/Mg2+ binding site [chemical binding]; other site 522306008018 G2 box; other site 522306008019 Switch I region; other site 522306008020 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 522306008021 G3 box; other site 522306008022 Switch II region; other site 522306008023 GTP/Mg2+ binding site [chemical binding]; other site 522306008024 G4 box; other site 522306008025 G5 box; other site 522306008026 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 522306008027 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 522306008028 DNA binding site [nucleotide binding] 522306008029 catalytic residue [active] 522306008030 H2TH interface [polypeptide binding]; other site 522306008031 putative catalytic residues [active] 522306008032 turnover-facilitating residue; other site 522306008033 intercalation triad [nucleotide binding]; other site 522306008034 8OG recognition residue [nucleotide binding]; other site 522306008035 putative reading head residues; other site 522306008036 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 522306008037 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 522306008038 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 522306008039 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 522306008040 binding surface 522306008041 TPR motif; other site 522306008042 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306008043 binding surface 522306008044 TPR motif; other site 522306008045 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 522306008046 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 522306008047 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 522306008048 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 522306008049 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 522306008050 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522306008051 active site 522306008052 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 522306008053 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 522306008054 5S rRNA interface [nucleotide binding]; other site 522306008055 CTC domain interface [polypeptide binding]; other site 522306008056 L16 interface [polypeptide binding]; other site 522306008057 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 522306008058 putative active site [active] 522306008059 catalytic residue [active] 522306008060 GTP-binding protein YchF; Reviewed; Region: PRK09601 522306008061 YchF GTPase; Region: YchF; cd01900 522306008062 G1 box; other site 522306008063 GTP/Mg2+ binding site [chemical binding]; other site 522306008064 Switch I region; other site 522306008065 G2 box; other site 522306008066 Switch II region; other site 522306008067 G3 box; other site 522306008068 G4 box; other site 522306008069 G5 box; other site 522306008070 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 522306008071 Fic family protein [Function unknown]; Region: COG3177 522306008072 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 522306008073 Fic/DOC family; Region: Fic; cl00960 522306008074 Helix-turn-helix domains; Region: HTH; cl00088 522306008075 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 522306008076 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 522306008077 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522306008078 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 522306008079 DNA binding residues [nucleotide binding] 522306008080 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 522306008081 Helix-turn-helix domains; Region: HTH; cl00088 522306008082 Integrase core domain; Region: rve; cl01316 522306008083 Integrase core domain; Region: rve_3; cl15866 522306008084 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 522306008085 AAA domain; Region: AAA_22; pfam13401 522306008086 Walker A motif; other site 522306008087 ATP binding site [chemical binding]; other site 522306008088 Walker B motif; other site 522306008089 arginine finger; other site 522306008090 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306008091 substrate pocket [chemical binding]; other site 522306008092 active site 522306008093 dimer interface [polypeptide binding]; other site 522306008094 proteolytic cleavage site; other site 522306008095 Sel1 repeat; Region: Sel1; cl02723 522306008096 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 522306008097 Sel1 repeat; Region: Sel1; cl02723 522306008098 Sel1 repeat; Region: Sel1; cl02723 522306008099 Sel1 repeat; Region: Sel1; cl02723 522306008100 Sel1 repeat; Region: Sel1; cl02723 522306008101 Sel1 repeat; Region: Sel1; cl02723 522306008102 Sel1 repeat; Region: Sel1; cl02723 522306008103 Sel1 repeat; Region: Sel1; cl02723 522306008104 Predicted permeases [General function prediction only]; Region: COG0701 522306008105 Predicted permease; Region: DUF318; pfam03773 522306008106 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 522306008107 carboxy-terminal protease; Provisional; Region: PRK11186 522306008108 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 522306008109 protein binding site [polypeptide binding]; other site 522306008110 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 522306008111 Catalytic dyad [active] 522306008112 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 522306008113 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 522306008114 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 522306008115 putative trimer interface [polypeptide binding]; other site 522306008116 putative metal binding site [ion binding]; other site 522306008117 PaaX-like protein; Region: PaaX; pfam07848 522306008118 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 522306008119 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 522306008120 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 522306008121 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 522306008122 catalytic loop [active] 522306008123 iron binding site [ion binding]; other site 522306008124 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 522306008125 FAD binding pocket [chemical binding]; other site 522306008126 FAD binding motif [chemical binding]; other site 522306008127 phosphate binding motif [ion binding]; other site 522306008128 beta-alpha-beta structure motif; other site 522306008129 NAD binding pocket [chemical binding]; other site 522306008130 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 522306008131 NAD(P) binding site [chemical binding]; other site 522306008132 catalytic residues [active] 522306008133 enoyl-CoA hydratase; Provisional; Region: PRK08140 522306008134 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 522306008135 substrate binding site [chemical binding]; other site 522306008136 oxyanion hole (OAH) forming residues; other site 522306008137 trimer interface [polypeptide binding]; other site 522306008138 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 522306008139 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 522306008140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306008141 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 522306008142 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 522306008143 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 522306008144 CoenzymeA binding site [chemical binding]; other site 522306008145 subunit interaction site [polypeptide binding]; other site 522306008146 PHB binding site; other site 522306008147 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 522306008148 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 522306008149 dimer interface [polypeptide binding]; other site 522306008150 active site 522306008151 esterase; Provisional; Region: PRK10566 522306008152 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 522306008153 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 522306008154 active site 522306008155 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 522306008156 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 522306008157 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 522306008158 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 522306008159 active site 522306008160 phosphorylation site [posttranslational modification] 522306008161 intermolecular recognition site; other site 522306008162 dimerization interface [polypeptide binding]; other site 522306008163 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522306008164 Zn2+ binding site [ion binding]; other site 522306008165 Mg2+ binding site [ion binding]; other site 522306008166 PAS fold; Region: PAS_4; pfam08448 522306008167 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 522306008168 putative active site [active] 522306008169 heme pocket [chemical binding]; other site 522306008170 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 522306008171 PAS fold; Region: PAS_3; pfam08447 522306008172 putative active site [active] 522306008173 heme pocket [chemical binding]; other site 522306008174 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 522306008175 dimer interface [polypeptide binding]; other site 522306008176 phosphorylation site [posttranslational modification] 522306008177 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 522306008178 ATP binding site [chemical binding]; other site 522306008179 Mg2+ binding site [ion binding]; other site 522306008180 G-X-G motif; other site 522306008181 Response regulator receiver domain; Region: Response_reg; pfam00072 522306008182 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 522306008183 active site 522306008184 phosphorylation site [posttranslational modification] 522306008185 intermolecular recognition site; other site 522306008186 dimerization interface [polypeptide binding]; other site 522306008187 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 522306008188 NeuB family; Region: NeuB; cl00496 522306008189 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 522306008190 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 522306008191 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 522306008192 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 522306008193 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 522306008194 [4Fe-4S] binding site [ion binding]; other site 522306008195 molybdopterin cofactor binding site; other site 522306008196 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 522306008197 molybdopterin cofactor binding site; other site 522306008198 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 522306008199 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 522306008200 glycosyl transferase family protein; Provisional; Region: PRK08136 522306008201 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 522306008202 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 522306008203 nudix motif; other site 522306008204 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 522306008205 ArsC family; Region: ArsC; pfam03960 522306008206 putative catalytic residues [active] 522306008207 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 522306008208 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306008209 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 522306008210 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 522306008211 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 522306008212 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 522306008213 [2Fe-2S] cluster binding site [ion binding]; other site 522306008214 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 522306008215 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 522306008216 putative substrate translocation pore; other site 522306008217 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 522306008218 active site 522306008219 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306008220 active site 522306008221 ATP binding site [chemical binding]; other site 522306008222 substrate binding site [chemical binding]; other site 522306008223 activation loop (A-loop); other site 522306008224 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 522306008225 Glucuronate isomerase; Region: UxaC; cl00829 522306008226 GAF domain; Region: GAF; cl15785 522306008227 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 522306008228 Mechanosensitive ion channel; Region: MS_channel; pfam00924 522306008229 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_1; cd09127 522306008230 PLD-like domain; Region: PLDc_2; pfam13091 522306008231 putative active site [active] 522306008232 putative catalytic site [active] 522306008233 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_2; cd09128 522306008234 putative active site [active] 522306008235 putative catalytic site [active] 522306008236 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 522306008237 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 522306008238 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 522306008239 Walker A/P-loop; other site 522306008240 ATP binding site [chemical binding]; other site 522306008241 Q-loop/lid; other site 522306008242 ABC transporter signature motif; other site 522306008243 Walker B; other site 522306008244 D-loop; other site 522306008245 H-loop/switch region; other site 522306008246 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 522306008247 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 522306008248 AMP-binding enzyme; Region: AMP-binding; cl15778 522306008249 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 522306008250 putative efflux protein, MATE family; Region: matE; TIGR00797 522306008251 MatE; Region: MatE; cl10513 522306008252 MatE; Region: MatE; cl10513 522306008253 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 522306008254 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 522306008255 N-terminal plug; other site 522306008256 ligand-binding site [chemical binding]; other site 522306008257 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 522306008258 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522306008259 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 522306008260 dimerization interface [polypeptide binding]; other site 522306008261 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 522306008262 dimer interface [polypeptide binding]; other site 522306008263 phosphorylation site [posttranslational modification] 522306008264 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 522306008265 ATP binding site [chemical binding]; other site 522306008266 Mg2+ binding site [ion binding]; other site 522306008267 G-X-G motif; other site 522306008268 Response regulator receiver domain; Region: Response_reg; pfam00072 522306008269 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 522306008270 active site 522306008271 phosphorylation site [posttranslational modification] 522306008272 intermolecular recognition site; other site 522306008273 dimerization interface [polypeptide binding]; other site 522306008274 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 522306008275 putative binding surface; other site 522306008276 active site 522306008277 Response regulator receiver domain; Region: Response_reg; pfam00072 522306008278 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 522306008279 active site 522306008280 phosphorylation site [posttranslational modification] 522306008281 intermolecular recognition site; other site 522306008282 dimerization interface [polypeptide binding]; other site 522306008283 putative diguanylate cyclase; Provisional; Region: PRK09776 522306008284 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 522306008285 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306008286 metal binding site [ion binding]; metal-binding site 522306008287 active site 522306008288 I-site; other site 522306008289 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 522306008290 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 522306008291 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306008292 metal binding site [ion binding]; metal-binding site 522306008293 active site 522306008294 I-site; other site 522306008295 PAS fold; Region: PAS_4; pfam08448 522306008296 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306008297 metal binding site [ion binding]; metal-binding site 522306008298 active site 522306008299 I-site; other site 522306008300 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 522306008301 octamerization interface [polypeptide binding]; other site 522306008302 diferric-oxygen binding site [ion binding]; other site 522306008303 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306008304 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 522306008305 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 522306008306 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 522306008307 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306008308 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 522306008309 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306008310 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306008311 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 522306008312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 522306008313 AAA domain; Region: AAA_33; pfam13671 522306008314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306008315 active site 522306008316 hypothetical protein; Reviewed; Region: PRK00024 522306008317 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 522306008318 MPN+ (JAMM) motif; other site 522306008319 Zinc-binding site [ion binding]; other site 522306008320 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 522306008321 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 522306008322 active site 522306008323 phosphorylation site [posttranslational modification] 522306008324 intermolecular recognition site; other site 522306008325 dimerization interface [polypeptide binding]; other site 522306008326 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 522306008327 DNA binding site [nucleotide binding] 522306008328 sensor protein RstB; Provisional; Region: PRK10604 522306008329 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306008330 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 522306008331 dimer interface [polypeptide binding]; other site 522306008332 phosphorylation site [posttranslational modification] 522306008333 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 522306008334 ATP binding site [chemical binding]; other site 522306008335 Mg2+ binding site [ion binding]; other site 522306008336 G-X-G motif; other site 522306008337 Mechanosensitive ion channel; Region: MS_channel; pfam00924 522306008338 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 522306008339 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306008340 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 522306008341 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 522306008342 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 522306008343 active site 522306008344 substrate binding site [chemical binding]; other site 522306008345 cosubstrate binding site; other site 522306008346 catalytic site [active] 522306008347 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 522306008348 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 522306008349 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 522306008350 ATP binding site [chemical binding]; other site 522306008351 Mg2+ binding site [ion binding]; other site 522306008352 G-X-G motif; other site 522306008353 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 522306008354 ATP binding site [chemical binding]; other site 522306008355 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 522306008356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306008357 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 522306008358 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 522306008359 Mechanosensitive ion channel; Region: MS_channel; pfam00924 522306008360 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 522306008361 ligand binding site [chemical binding]; other site 522306008362 flexible hinge region; other site 522306008363 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 522306008364 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 522306008365 dimer interface [polypeptide binding]; other site 522306008366 putative functional site; other site 522306008367 putative MPT binding site; other site 522306008368 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 522306008369 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 522306008370 FeS/SAM binding site; other site 522306008371 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 522306008372 Peptidase family M48; Region: Peptidase_M48; cl12018 522306008373 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cl00250 522306008374 30S subunit binding site; other site 522306008375 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 522306008376 Helix-turn-helix domains; Region: HTH; cl00088 522306008377 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 522306008378 putative dimerization interface [polypeptide binding]; other site 522306008379 Tim44-like domain; Region: Tim44; cl09208 522306008380 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 522306008381 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 522306008382 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 522306008383 Probable Catalytic site; other site 522306008384 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 522306008385 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 522306008386 FeS/SAM binding site; other site 522306008387 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 522306008388 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 522306008389 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306008390 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 522306008391 motif II; other site 522306008392 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 522306008393 mercuric reductase; Validated; Region: PRK06370 522306008394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306008395 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306008396 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 522306008397 Protein of unknown function, DUF547; Region: DUF547; pfam04784 522306008398 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 522306008399 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 522306008400 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306008401 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306008402 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 522306008403 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 522306008404 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 522306008405 Walker A/P-loop; other site 522306008406 ATP binding site [chemical binding]; other site 522306008407 Q-loop/lid; other site 522306008408 ABC transporter signature motif; other site 522306008409 Walker B; other site 522306008410 D-loop; other site 522306008411 H-loop/switch region; other site 522306008412 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 522306008413 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 522306008414 dimer interface [polypeptide binding]; other site 522306008415 phosphorylation site [posttranslational modification] 522306008416 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 522306008417 ATP binding site [chemical binding]; other site 522306008418 Mg2+ binding site [ion binding]; other site 522306008419 G-X-G motif; other site 522306008420 Response regulator receiver domain; Region: Response_reg; pfam00072 522306008421 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 522306008422 active site 522306008423 phosphorylation site [posttranslational modification] 522306008424 intermolecular recognition site; other site 522306008425 dimerization interface [polypeptide binding]; other site 522306008426 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 522306008427 putative binding surface; other site 522306008428 active site 522306008429 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306008430 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 522306008431 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 522306008432 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 522306008433 Dienelactone hydrolase family; Region: DLH; pfam01738 522306008434 Uncharacterized conserved protein [Function unknown]; Region: COG4278 522306008435 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 522306008436 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 522306008437 tetramerization interface [polypeptide binding]; other site 522306008438 NAD(P) binding site [chemical binding]; other site 522306008439 catalytic residues [active] 522306008440 NlpC/P60 family; Region: NLPC_P60; cl11438 522306008441 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 522306008442 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 522306008443 putative cation:proton antiport protein; Provisional; Region: PRK10669 522306008444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306008445 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 522306008446 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 522306008447 FeS/SAM binding site; other site 522306008448 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 522306008449 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 522306008450 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 522306008451 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306008452 Integrase core domain; Region: rve; cl01316 522306008453 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522306008454 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 522306008455 Walker A motif; other site 522306008456 ATP binding site [chemical binding]; other site 522306008457 Walker B motif; other site 522306008458 Transposase [DNA replication, recombination, and repair]; Region: COG5421 522306008459 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 522306008460 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 522306008461 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 522306008462 DXD motif; other site 522306008463 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 522306008464 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 522306008465 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306008466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306008467 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 522306008468 active site 522306008469 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 522306008470 active site 522306008471 catalytic residues [active] 522306008472 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 522306008473 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 522306008474 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 522306008475 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 522306008476 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 522306008477 RNA/DNA hybrid binding site [nucleotide binding]; other site 522306008478 active site 522306008479 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 522306008480 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 522306008481 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 522306008482 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 522306008483 active site 522306008484 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 522306008485 periplasmic chaperone; Provisional; Region: PRK10780 522306008486 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 522306008487 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 522306008488 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 522306008489 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 522306008490 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 522306008491 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 522306008492 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 522306008493 Surface antigen; Region: Bac_surface_Ag; cl03097 522306008494 zinc metallopeptidase RseP; Provisional; Region: PRK10779 522306008495 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 522306008496 active site 522306008497 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 522306008498 protein binding site [polypeptide binding]; other site 522306008499 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 522306008500 putative substrate binding region [chemical binding]; other site 522306008501 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 522306008502 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 522306008503 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 522306008504 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 522306008505 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 522306008506 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; cd00475 522306008507 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 522306008508 catalytic residue [active] 522306008509 putative FPP diphosphate binding site; other site 522306008510 putative FPP binding hydrophobic cleft; other site 522306008511 dimer interface [polypeptide binding]; other site 522306008512 putative IPP diphosphate binding site; other site 522306008513 ribosome recycling factor; Reviewed; Region: frr; PRK00083 522306008514 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 522306008515 hinge region; other site 522306008516 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 522306008517 putative nucleotide binding site [chemical binding]; other site 522306008518 uridine monophosphate binding site [chemical binding]; other site 522306008519 homohexameric interface [polypeptide binding]; other site 522306008520 elongation factor Ts; Provisional; Region: tsf; PRK09377 522306008521 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 522306008522 Elongation factor TS; Region: EF_TS; pfam00889 522306008523 Elongation factor TS; Region: EF_TS; pfam00889 522306008524 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 522306008525 rRNA interaction site [nucleotide binding]; other site 522306008526 S8 interaction site; other site 522306008527 putative laminin-1 binding site; other site 522306008528 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 522306008529 active site 522306008530 PII uridylyl-transferase; Provisional; Region: PRK03059 522306008531 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522306008532 metal binding triad; other site 522306008533 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 522306008534 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306008535 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 522306008536 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 522306008537 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_HprK; cl00270 522306008538 active site 522306008539 metal-binding site [ion binding] 522306008540 nucleotide-binding site [chemical binding]; other site 522306008541 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 522306008542 Uncharacterized conserved protein [Function unknown]; Region: COG1262 522306008543 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306008544 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 522306008545 putative substrate translocation pore; other site 522306008546 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 522306008547 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 522306008548 active site 522306008549 cosubstrate binding site; other site 522306008550 substrate binding site [chemical binding]; other site 522306008551 catalytic site [active] 522306008552 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 522306008553 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 522306008554 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 522306008555 generic binding surface II; other site 522306008556 generic binding surface I; other site 522306008557 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 522306008558 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 522306008559 TRAM domain; Region: TRAM; cl01282 522306008560 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 522306008561 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 522306008562 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 522306008563 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 522306008564 substrate binding pocket [chemical binding]; other site 522306008565 membrane-bound complex binding site; other site 522306008566 hinge residues; other site 522306008567 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 522306008568 active site 522306008569 catalytic site [active] 522306008570 substrate binding site [chemical binding]; other site 522306008571 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 522306008572 cysteine synthase B; Region: cysM; TIGR01138 522306008573 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 522306008574 dimer interface [polypeptide binding]; other site 522306008575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306008576 catalytic residue [active] 522306008577 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 522306008578 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 522306008579 NADP binding site [chemical binding]; other site 522306008580 homopentamer interface [polypeptide binding]; other site 522306008581 substrate binding site [chemical binding]; other site 522306008582 active site 522306008583 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 522306008584 putative ribose interaction site [chemical binding]; other site 522306008585 putative ADP binding site [chemical binding]; other site 522306008586 tetratricopeptide repeat protein; Provisional; Region: PRK11788 522306008587 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306008588 binding surface 522306008589 TPR motif; other site 522306008590 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306008591 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 522306008592 IHF dimer interface [polypeptide binding]; other site 522306008593 IHF - DNA interface [nucleotide binding]; other site 522306008594 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 522306008595 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 522306008596 RNA binding site [nucleotide binding]; other site 522306008597 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 522306008598 RNA binding site [nucleotide binding]; other site 522306008599 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 522306008600 RNA binding site [nucleotide binding]; other site 522306008601 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 522306008602 RNA binding site [nucleotide binding]; other site 522306008603 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 522306008604 RNA binding site [nucleotide binding]; other site 522306008605 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 522306008606 RNA binding site [nucleotide binding]; other site 522306008607 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 522306008608 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 522306008609 hinge; other site 522306008610 active site 522306008611 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 522306008612 CMP-binding site; other site 522306008613 The sites determining sugar specificity; other site 522306008614 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 522306008615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306008616 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 522306008617 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 522306008618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306008619 homodimer interface [polypeptide binding]; other site 522306008620 catalytic residue [active] 522306008621 Chorismate mutase type II; Region: CM_2; cl00693 522306008622 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 522306008623 Prephenate dehydratase; Region: PDT; pfam00800 522306008624 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 522306008625 putative L-Phe binding site [chemical binding]; other site 522306008626 DNA gyrase subunit A; Validated; Region: PRK05560 522306008627 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 522306008628 CAP-like domain; other site 522306008629 active site 522306008630 primary dimer interface [polypeptide binding]; other site 522306008631 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 522306008632 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 522306008633 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 522306008634 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 522306008635 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 522306008636 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306008637 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306008638 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 522306008639 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 522306008640 GDP-binding site [chemical binding]; other site 522306008641 ACT binding site; other site 522306008642 IMP binding site; other site 522306008643 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 522306008644 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 522306008645 motif 1; other site 522306008646 dimer interface [polypeptide binding]; other site 522306008647 active site 522306008648 motif 2; other site 522306008649 motif 3; other site 522306008650 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 522306008651 HflC protein; Region: hflC; TIGR01932 522306008652 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 522306008653 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 522306008654 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 522306008655 HflK protein; Region: hflK; TIGR01933 522306008656 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 522306008657 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 522306008658 HflX GTPase family; Region: HflX; cd01878 522306008659 G1 box; other site 522306008660 GTP/Mg2+ binding site [chemical binding]; other site 522306008661 Switch I region; other site 522306008662 G2 box; other site 522306008663 G3 box; other site 522306008664 Switch II region; other site 522306008665 G4 box; other site 522306008666 G5 box; other site 522306008667 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 522306008668 Sm1 motif; other site 522306008669 intra - hexamer interaction site; other site 522306008670 inter - hexamer interaction site [polypeptide binding]; other site 522306008671 nucleotide binding pocket [chemical binding]; other site 522306008672 Sm2 motif; other site 522306008673 hypothetical protein; Validated; Region: PRK08223 522306008674 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 522306008675 ATP binding site [chemical binding]; other site 522306008676 substrate interface [chemical binding]; other site 522306008677 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 522306008678 hypothetical protein; Provisional; Region: PRK07877 522306008679 dimer interface [polypeptide binding]; other site 522306008680 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306008681 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 522306008682 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 522306008683 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 522306008684 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 522306008685 putative trimer interface [polypeptide binding]; other site 522306008686 putative CoA binding site [chemical binding]; other site 522306008687 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 522306008688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306008689 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 522306008690 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 522306008691 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 522306008692 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522306008693 FtsX-like permease family; Region: FtsX; cl15850 522306008694 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 522306008695 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522306008696 FtsX-like permease family; Region: FtsX; cl15850 522306008697 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 522306008698 Fatty acyltransferase-like subfamily of the SGNH hydrolases, 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...; Region: fatty_acyltransferase_like; cd01846 522306008699 active site 522306008700 catalytic triad [active] 522306008701 oxyanion hole [active] 522306008702 PEP-CTERM motif; Region: VPEP; cl15443 522306008703 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 522306008704 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 522306008705 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 522306008706 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 522306008707 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 522306008708 nudix motif; other site 522306008709 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 522306008710 homodimer interface [polypeptide binding]; other site 522306008711 substrate-cofactor binding pocket; other site 522306008712 catalytic residue [active] 522306008713 Zinc-finger domain; Region: zf-CHCC; cl01821 522306008714 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 522306008715 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 522306008716 putative active site [active] 522306008717 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 522306008718 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 522306008719 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 522306008720 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 522306008721 active site 522306008722 substrate binding site [chemical binding]; other site 522306008723 metal binding site [ion binding]; metal-binding site 522306008724 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 522306008725 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; cl00290 522306008726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306008727 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 522306008728 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 522306008729 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 522306008730 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 522306008731 Walker A motif; other site 522306008732 ATP binding site [chemical binding]; other site 522306008733 Walker B motif; other site 522306008734 arginine finger; other site 522306008735 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 522306008736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 522306008737 FIST C domain; Region: FIST_C; pfam10442 522306008738 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 522306008739 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 522306008740 minor groove reading motif; other site 522306008741 helix-hairpin-helix signature motif; other site 522306008742 substrate binding pocket [chemical binding]; other site 522306008743 active site 522306008744 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 522306008745 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 522306008746 FMN-binding domain; Region: FMN_bind; cl01081 522306008747 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 522306008748 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 522306008749 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 522306008750 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 522306008751 SLBB domain; Region: SLBB; pfam10531 522306008752 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 522306008753 electron transport complex protein RnfB; Provisional; Region: PRK05113 522306008754 Putative Fe-S cluster; Region: FeS; pfam04060 522306008755 4Fe-4S binding domain; Region: Fer4; cl02805 522306008756 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 522306008757 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 522306008758 quinone interaction residues [chemical binding]; other site 522306008759 active site 522306008760 catalytic residues [active] 522306008761 FMN binding site [chemical binding]; other site 522306008762 substrate binding site [chemical binding]; other site 522306008763 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 522306008764 Cytochrome c; Region: Cytochrom_C; cl11414 522306008765 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306008766 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 522306008767 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 522306008768 dimer interface [polypeptide binding]; other site 522306008769 conserved gate region; other site 522306008770 putative PBP binding loops; other site 522306008771 ABC-ATPase subunit interface; other site 522306008772 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522306008773 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 522306008774 Walker A/P-loop; other site 522306008775 ATP binding site [chemical binding]; other site 522306008776 Q-loop/lid; other site 522306008777 ABC transporter signature motif; other site 522306008778 Walker B; other site 522306008779 D-loop; other site 522306008780 H-loop/switch region; other site 522306008781 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 522306008782 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 522306008783 RNA binding site [nucleotide binding]; other site 522306008784 active site 522306008785 Ribosome-binding factor A; Region: RBFA; cl00542 522306008786 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 522306008787 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 522306008788 translation initiation factor IF-2; Region: IF-2; TIGR00487 522306008789 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 522306008790 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 522306008791 G1 box; other site 522306008792 putative GEF interaction site [polypeptide binding]; other site 522306008793 GTP/Mg2+ binding site [chemical binding]; other site 522306008794 Switch I region; other site 522306008795 G2 box; other site 522306008796 G3 box; other site 522306008797 Switch II region; other site 522306008798 G4 box; other site 522306008799 G5 box; other site 522306008800 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 522306008801 Translation-initiation factor 2; Region: IF-2; pfam11987 522306008802 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 522306008803 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 522306008804 NusA N-terminal domain; Region: NusA_N; pfam08529 522306008805 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 522306008806 RNA binding site [nucleotide binding]; other site 522306008807 homodimer interface [polypeptide binding]; other site 522306008808 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 522306008809 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 522306008810 G-X-X-G motif; other site 522306008811 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 522306008812 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 522306008813 ribosome maturation protein RimP; Reviewed; Region: PRK00092 522306008814 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 522306008815 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 522306008816 Sm1 motif; other site 522306008817 predicted subunit interaction site [polypeptide binding]; other site 522306008818 RNA binding pocket [nucleotide binding]; other site 522306008819 Sm2 motif; other site 522306008820 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 522306008821 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 522306008822 RNA binding surface [nucleotide binding]; other site 522306008823 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 522306008824 probable active site [active] 522306008825 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 522306008826 ScpA/B protein; Region: ScpA_ScpB; cl00598 522306008827 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 522306008828 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 522306008829 active site 522306008830 HIGH motif; other site 522306008831 dimer interface [polypeptide binding]; other site 522306008832 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522306008833 active site 522306008834 KMSKS motif; other site 522306008835 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 522306008836 active site 522306008837 putative substrate binding region [chemical binding]; other site 522306008838 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 522306008839 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 522306008840 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 522306008841 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 522306008842 S-adenosylmethionine binding site [chemical binding]; other site 522306008843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306008844 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 522306008845 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 522306008846 dimer interface [polypeptide binding]; other site 522306008847 phosphorylation site [posttranslational modification] 522306008848 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 522306008849 ATP binding site [chemical binding]; other site 522306008850 Mg2+ binding site [ion binding]; other site 522306008851 G-X-G motif; other site 522306008852 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522306008853 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 522306008854 active site 522306008855 phosphorylation site [posttranslational modification] 522306008856 intermolecular recognition site; other site 522306008857 dimerization interface [polypeptide binding]; other site 522306008858 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 522306008859 DNA binding site [nucleotide binding] 522306008860 Spondin_N; Region: Spond_N; pfam06468 522306008861 PEP-CTERM motif; Region: VPEP; cl15443 522306008862 hypothetical protein; Provisional; Region: PRK14852 522306008863 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 522306008864 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 522306008865 dimer interface [polypeptide binding]; other site 522306008866 phosphorylation site [posttranslational modification] 522306008867 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 522306008868 ATP binding site [chemical binding]; other site 522306008869 Mg2+ binding site [ion binding]; other site 522306008870 G-X-G motif; other site 522306008871 response regulator GlrR; Provisional; Region: PRK15115 522306008872 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 522306008873 active site 522306008874 phosphorylation site [posttranslational modification] 522306008875 intermolecular recognition site; other site 522306008876 dimerization interface [polypeptide binding]; other site 522306008877 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 522306008878 Walker A motif; other site 522306008879 ATP binding site [chemical binding]; other site 522306008880 Walker B motif; other site 522306008881 arginine finger; other site 522306008882 Helix-turn-helix domains; Region: HTH; cl00088 522306008883 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 522306008884 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 522306008885 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 522306008886 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 522306008887 Helix-turn-helix domains; Region: HTH; cl00088 522306008888 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 522306008889 dimerization interface [polypeptide binding]; other site 522306008890 substrate binding pocket [chemical binding]; other site 522306008891 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 522306008892 ATP phosphoribosyltransferase; Region: HisG; cl15266 522306008893 HisG, C-terminal domain; Region: HisG_C; cl06867 522306008894 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 522306008895 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 522306008896 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 522306008897 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 522306008898 putative active site [active] 522306008899 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306008900 TPR motif; other site 522306008901 binding surface 522306008902 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 522306008903 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 522306008904 Putative zinc-finger; Region: zf-HC2; cl15806 522306008905 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 522306008906 This family represents an uncharacterized glycosyl hydrolase family 31 (GH31) enzyme found in bacteria and eukaryotes that is related to the XylS xylosidase of Sulfolobus solfataricus. Alpha-xylosidases catalyze the release of an alpha-xylose residue...; Region: GH31_xylosidase_XylS-like; cd06595 522306008907 putative active site [active] 522306008908 putative catalytic site [active] 522306008909 NnrS protein; Region: NnrS; cl01258 522306008910 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 522306008911 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 522306008912 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 522306008913 signal recognition particle protein; Provisional; Region: PRK10867 522306008914 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 522306008915 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 522306008916 P loop; other site 522306008917 GTP binding site [chemical binding]; other site 522306008918 Signal peptide binding domain; Region: SRP_SPB; pfam02978 522306008919 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 522306008920 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522306008921 catalytic residue [active] 522306008922 prolyl-tRNA synthetase; Provisional; Region: PRK09194 522306008923 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 522306008924 dimer interface [polypeptide binding]; other site 522306008925 motif 1; other site 522306008926 active site 522306008927 motif 2; other site 522306008928 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 522306008929 putative deacylase active site [active] 522306008930 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 522306008931 active site 522306008932 motif 3; other site 522306008933 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 522306008934 anticodon binding site; other site 522306008935 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 522306008936 putative active site [active] 522306008937 Ap4A binding site [chemical binding]; other site 522306008938 nudix motif; other site 522306008939 putative metal binding site [ion binding]; other site 522306008940 CNP1-like family; Region: CNP1; pfam08750 522306008941 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 522306008942 diiron binding motif [ion binding]; other site 522306008943 OsmC-like protein; Region: OsmC; cl00767 522306008944 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 522306008945 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 522306008946 Aspartase; Region: Aspartase; cd01357 522306008947 active sites [active] 522306008948 tetramer interface [polypeptide binding]; other site 522306008949 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 522306008950 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522306008951 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 522306008952 Cupin domain; Region: Cupin_2; cl09118 522306008953 Cupin domain; Region: Cupin_2; cl09118 522306008954 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 522306008955 hydrophobic ligand binding site; other site 522306008956 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306008957 ligand binding site [chemical binding]; other site 522306008958 Catalytic domain of Protein Kinases; Region: PKc; cd00180 522306008959 active site 522306008960 ATP binding site [chemical binding]; other site 522306008961 substrate binding site [chemical binding]; other site 522306008962 activation loop (A-loop); other site 522306008963 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 522306008964 Archaeal ATPase; Region: Arch_ATPase; pfam01637 522306008965 FOG: WD40 repeat [General function prediction only]; Region: COG2319 522306008966 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 522306008967 structural tetrad; other site 522306008968 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 522306008969 structural tetrad; other site 522306008970 TIR domain; Region: TIR_2; cl15770 522306008971 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 522306008972 23S rRNA interface [nucleotide binding]; other site 522306008973 L3 interface [polypeptide binding]; other site 522306008974 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 522306008975 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 522306008976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306008977 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 522306008978 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 522306008979 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 522306008980 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 522306008981 FAD binding site [chemical binding]; other site 522306008982 substrate binding pocket [chemical binding]; other site 522306008983 catalytic base [active] 522306008984 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 522306008985 Helix-turn-helix domains; Region: HTH; cl00088 522306008986 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 522306008987 dimerization interface [polypeptide binding]; other site 522306008988 substrate binding pocket [chemical binding]; other site 522306008989 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 522306008990 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 522306008991 intersubunit interface [polypeptide binding]; other site 522306008992 active site 522306008993 Zn2+ binding site [ion binding]; other site 522306008994 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522306008995 Helix-turn-helix domains; Region: HTH; cl00088 522306008996 Integrase core domain; Region: rve; cl01316 522306008997 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306008998 Protein of unknown function, DUF482; Region: DUF482; pfam04339 522306008999 aconitate hydratase; Validated; Region: PRK09277 522306009000 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 522306009001 substrate binding site [chemical binding]; other site 522306009002 ligand binding site [chemical binding]; other site 522306009003 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 522306009004 substrate binding site [chemical binding]; other site 522306009005 Peptidase family M48; Region: Peptidase_M48; cl12018 522306009006 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306009007 dimer interface [polypeptide binding]; other site 522306009008 putative CheW interface [polypeptide binding]; other site 522306009009 cyclase homology domain; Region: CHD; cd07302 522306009010 nucleotidyl binding site; other site 522306009011 metal binding site [ion binding]; metal-binding site 522306009012 dimer interface [polypeptide binding]; other site 522306009013 HDOD domain; Region: HDOD; pfam08668 522306009014 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306009015 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 522306009016 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522306009017 catalytic residue [active] 522306009018 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 522306009019 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 522306009020 putative peptidoglycan binding site; other site 522306009021 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 522306009022 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 522306009023 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 522306009024 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 522306009025 putative peptidoglycan binding site; other site 522306009026 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 522306009027 putative peptidoglycan binding site; other site 522306009028 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 522306009029 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 522306009030 Walker A/P-loop; other site 522306009031 ATP binding site [chemical binding]; other site 522306009032 Q-loop/lid; other site 522306009033 ABC transporter signature motif; other site 522306009034 Walker B; other site 522306009035 D-loop; other site 522306009036 H-loop/switch region; other site 522306009037 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 522306009038 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 522306009039 Walker A/P-loop; other site 522306009040 ATP binding site [chemical binding]; other site 522306009041 Q-loop/lid; other site 522306009042 ABC transporter signature motif; other site 522306009043 Walker B; other site 522306009044 D-loop; other site 522306009045 H-loop/switch region; other site 522306009046 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 522306009047 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 522306009048 dimer interface [polypeptide binding]; other site 522306009049 conserved gate region; other site 522306009050 putative PBP binding loops; other site 522306009051 ABC-ATPase subunit interface; other site 522306009052 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 522306009053 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 522306009054 dimer interface [polypeptide binding]; other site 522306009055 conserved gate region; other site 522306009056 putative PBP binding loops; other site 522306009057 ABC-ATPase subunit interface; other site 522306009058 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_18; cd08505 522306009059 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 522306009060 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 522306009061 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 522306009062 NAD binding site [chemical binding]; other site 522306009063 homotetramer interface [polypeptide binding]; other site 522306009064 homodimer interface [polypeptide binding]; other site 522306009065 substrate binding site [chemical binding]; other site 522306009066 active site 522306009067 Cupin domain; Region: Cupin_2; cl09118 522306009068 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 522306009069 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522306009070 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 522306009071 MT-A70; Region: MT-A70; cl01947 522306009072 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 522306009073 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 522306009074 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 522306009075 catalytic core [active] 522306009076 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 522306009077 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 522306009078 Int/Topo IB signature motif; other site 522306009079 active site 522306009080 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 522306009081 DNA binding site [nucleotide binding] 522306009082 active site 522306009083 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 522306009084 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 522306009085 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 522306009086 putative catalytic cysteine [active] 522306009087 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 522306009088 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 522306009089 Lipopolysaccharide-assembly; Region: LptE; cl01125 522306009090 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 522306009091 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 522306009092 HIGH motif; other site 522306009093 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 522306009094 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522306009095 active site 522306009096 KMSKS motif; other site 522306009097 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 522306009098 tRNA binding surface [nucleotide binding]; other site 522306009099 RNA polymerase sigma factor; Provisional; Region: PRK12513 522306009100 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522306009101 FecR protein; Region: FecR; pfam04773 522306009102 Sporulation related domain; Region: SPOR; cl10051 522306009103 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 522306009104 AMP binding site [chemical binding]; other site 522306009105 metal binding site [ion binding]; metal-binding site 522306009106 active site 522306009107 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 522306009108 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 522306009109 Walker A/P-loop; other site 522306009110 ATP binding site [chemical binding]; other site 522306009111 Q-loop/lid; other site 522306009112 ABC transporter signature motif; other site 522306009113 Walker B; other site 522306009114 D-loop; other site 522306009115 H-loop/switch region; other site 522306009116 Cobalt transport protein; Region: CbiQ; cl00463 522306009117 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 522306009118 PDGLE domain; Region: PDGLE; cl07986 522306009119 TRAM domain; Region: TRAM; cl01282 522306009120 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 522306009121 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 522306009122 S-adenosylmethionine binding site [chemical binding]; other site 522306009123 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 522306009124 Cation efflux family; Region: Cation_efflux; cl00316 522306009125 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 522306009126 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 522306009127 ATP binding site [chemical binding]; other site 522306009128 putative Mg++ binding site [ion binding]; other site 522306009129 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 522306009130 nucleotide binding region [chemical binding]; other site 522306009131 ATP-binding site [chemical binding]; other site 522306009132 Protein of unknown function (DUF520); Region: DUF520; cl00723 522306009133 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 522306009134 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 522306009135 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 522306009136 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 522306009137 ANP binding site [chemical binding]; other site 522306009138 Substrate Binding Site II [chemical binding]; other site 522306009139 Substrate Binding Site I [chemical binding]; other site 522306009140 ornithine carbamoyltransferase; Provisional; Region: PRK00779 522306009141 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 522306009142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009143 acetylornithine aminotransferase; Provisional; Region: PRK02627 522306009144 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 522306009145 inhibitor-cofactor binding pocket; inhibition site 522306009146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306009147 catalytic residue [active] 522306009148 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306009149 Transposase IS200 like; Region: Y1_Tnp; cl00848 522306009150 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 522306009151 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 522306009152 putative active site [active] 522306009153 putative NTP binding site [chemical binding]; other site 522306009154 putative nucleic acid binding site [nucleotide binding]; other site 522306009155 HRDC domain; Region: HRDC; cl02578 522306009156 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306009157 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306009158 TIR domain; Region: TIR_2; cl15770 522306009159 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 522306009160 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 522306009161 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 522306009162 Mig-14; Region: Mig-14; pfam07395 522306009163 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306009164 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 522306009165 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 522306009166 active site 522306009167 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 522306009168 Protein of unknown function DUF82; Region: DUF82; pfam01927 522306009169 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; cd02933 522306009170 FMN binding site [chemical binding]; other site 522306009171 active site 522306009172 substrate binding site [chemical binding]; other site 522306009173 catalytic residue [active] 522306009174 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 522306009175 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 522306009176 active site 522306009177 metal binding site [ion binding]; metal-binding site 522306009178 DNA binding site [nucleotide binding] 522306009179 AAA domain; Region: AAA_27; pfam13514 522306009180 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 522306009181 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306009182 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 522306009183 dimer interface [polypeptide binding]; other site 522306009184 Citrate synthase; Region: Citrate_synt; pfam00285 522306009185 active site 522306009186 citrylCoA binding site [chemical binding]; other site 522306009187 NADH binding [chemical binding]; other site 522306009188 cationic pore residues; other site 522306009189 oxalacetate/citrate binding site [chemical binding]; other site 522306009190 coenzyme A binding site [chemical binding]; other site 522306009191 catalytic triad [active] 522306009192 glycolate transporter; Provisional; Region: PRK09695 522306009193 L-lactate permease; Region: Lactate_perm; cl00701 522306009194 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 522306009195 FAD binding domain; Region: FAD_binding_4; pfam01565 522306009196 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 522306009197 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 522306009198 Cysteine-rich domain; Region: CCG; pfam02754 522306009199 Transcriptional regulators [Transcription]; Region: FadR; COG2186 522306009200 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522306009201 DNA-binding site [nucleotide binding]; DNA binding site 522306009202 FCD domain; Region: FCD; cl11656 522306009203 Cytochrome c; Region: Cytochrom_C; cl11414 522306009204 Cytochrome c; Region: Cytochrom_C; cl11414 522306009205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306009206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306009207 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306009208 active site 522306009209 ATP binding site [chemical binding]; other site 522306009210 substrate binding site [chemical binding]; other site 522306009211 activation loop (A-loop); other site 522306009212 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306009213 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 522306009214 IHF dimer interface [polypeptide binding]; other site 522306009215 IHF - DNA interface [nucleotide binding]; other site 522306009216 methionine aminopeptidase; Provisional; Region: PRK12318 522306009217 SEC-C motif; Region: SEC-C; pfam02810 522306009218 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 522306009219 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 522306009220 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522306009221 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 522306009222 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 522306009223 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 522306009224 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 522306009225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009226 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 522306009227 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 522306009228 ATP binding site [chemical binding]; other site 522306009229 putative Mg++ binding site [ion binding]; other site 522306009230 seryl-tRNA synthetase; Provisional; Region: PRK05431 522306009231 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 522306009232 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 522306009233 dimer interface [polypeptide binding]; other site 522306009234 active site 522306009235 motif 1; other site 522306009236 motif 2; other site 522306009237 motif 3; other site 522306009238 recombination factor protein RarA; Reviewed; Region: PRK13342 522306009239 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 522306009240 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 522306009241 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 522306009242 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 522306009243 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 522306009244 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 522306009245 Helix-turn-helix domains; Region: HTH; cl00088 522306009246 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 522306009247 dimerization interface [polypeptide binding]; other site 522306009248 substrate binding pocket [chemical binding]; other site 522306009249 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 522306009250 active site 522306009251 FOG: CBS domain [General function prediction only]; Region: COG0517 522306009252 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 522306009253 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522306009254 metal binding triad; other site 522306009255 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 522306009256 PAS domain; Region: PAS_9; pfam13426 522306009257 sensory histidine kinase CreC; Provisional; Region: PRK11100 522306009258 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 522306009259 active site 522306009260 substrate binding site [chemical binding]; other site 522306009261 catalytic site [active] 522306009262 Response regulator receiver domain; Region: Response_reg; pfam00072 522306009263 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 522306009264 active site 522306009265 phosphorylation site [posttranslational modification] 522306009266 intermolecular recognition site; other site 522306009267 dimerization interface [polypeptide binding]; other site 522306009268 Sodium:solute symporter family; Region: SSF; cl00456 522306009269 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 522306009270 dimer interface [polypeptide binding]; other site 522306009271 phosphorylation site [posttranslational modification] 522306009272 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 522306009273 ATP binding site [chemical binding]; other site 522306009274 Mg2+ binding site [ion binding]; other site 522306009275 G-X-G motif; other site 522306009276 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 522306009277 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 522306009278 substrate binding site [chemical binding]; other site 522306009279 oxyanion hole (OAH) forming residues; other site 522306009280 trimer interface [polypeptide binding]; other site 522306009281 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 522306009282 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 522306009283 metal binding site [ion binding]; metal-binding site 522306009284 substrate binding pocket [chemical binding]; other site 522306009285 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306009286 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 522306009287 Family description; Region: UvrD_C_2; cl15862 522306009288 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306009289 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 522306009290 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 522306009291 classical (c) SDRs; Region: SDR_c; cd05233 522306009292 NAD(P) binding site [chemical binding]; other site 522306009293 active site 522306009294 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 522306009295 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 522306009296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009297 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 522306009298 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 522306009299 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 522306009300 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 522306009301 active site 522306009302 catalytic site [active] 522306009303 substrate binding site [chemical binding]; other site 522306009304 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 522306009305 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 522306009306 GIY-YIG motif/motif A; other site 522306009307 active site 522306009308 catalytic site [active] 522306009309 putative DNA binding site [nucleotide binding]; other site 522306009310 metal binding site [ion binding]; metal-binding site 522306009311 AMIN domain; Region: AMIN; pfam11741 522306009312 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 522306009313 active site 522306009314 metal binding site [ion binding]; metal-binding site 522306009315 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 522306009316 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 522306009317 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 522306009318 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 522306009319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009320 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 522306009321 Rhodopirellula transposase DDE domain; Region: DDE_Tnp_ISAZ013; pfam07592 522306009322 Integrase core domain; Region: rve; cl01316 522306009323 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 522306009324 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 522306009325 Integrase core domain; Region: rve; cl01316 522306009326 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 522306009327 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 522306009328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 522306009329 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 522306009330 Integrase core domain; Region: rve; cl01316 522306009331 Integrase core domain; Region: rve; cl01316 522306009332 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 522306009333 PEP-CTERM motif; Region: VPEP; cl15443 522306009334 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 522306009335 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 522306009336 putative active site [active] 522306009337 putative NTP binding site [chemical binding]; other site 522306009338 putative nucleic acid binding site [nucleotide binding]; other site 522306009339 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 522306009340 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306009341 binding surface 522306009342 TPR motif; other site 522306009343 TPR repeat; Region: TPR_11; pfam13414 522306009344 TPR repeat; Region: TPR_11; pfam13414 522306009345 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306009346 binding surface 522306009347 TPR motif; other site 522306009348 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306009349 binding surface 522306009350 TPR motif; other site 522306009351 TPR repeat; Region: TPR_11; pfam13414 522306009352 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522306009353 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306009354 binding surface 522306009355 TPR motif; other site 522306009356 Domain of unknown function DUF29; Region: DUF29; pfam01724 522306009357 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 522306009358 AMP-binding enzyme; Region: AMP-binding; cl15778 522306009359 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306009360 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306009361 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 522306009362 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306009363 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 522306009364 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 522306009365 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 522306009366 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 522306009367 Flagellin N-methylase; Region: FliB; cl00497 522306009368 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 522306009369 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 522306009370 S-adenosylmethionine binding site [chemical binding]; other site 522306009371 DDE superfamily endonuclease; Region: DDE_5; cl02413 522306009372 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306009373 Amino acid permease; Region: AA_permease_2; pfam13520 522306009374 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 522306009375 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 522306009376 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306009377 Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E); Region: PHA_synth_III_E; cl09914 522306009378 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 522306009379 active site 522306009380 catalytic site [active] 522306009381 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 522306009382 active site 522306009383 catalytic site [active] 522306009384 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 522306009385 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 522306009386 dimer interface [polypeptide binding]; other site 522306009387 active site 522306009388 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 522306009389 NAD binding site [chemical binding]; other site 522306009390 homotetramer interface [polypeptide binding]; other site 522306009391 homodimer interface [polypeptide binding]; other site 522306009392 active site 522306009393 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 522306009394 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 522306009395 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 522306009396 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 522306009397 AMP-binding enzyme; Region: AMP-binding; cl15778 522306009398 AMP-binding enzyme; Region: AMP-binding; cl15778 522306009399 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 522306009400 enoyl-CoA hydratase; Provisional; Region: PRK05862 522306009401 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 522306009402 substrate binding site [chemical binding]; other site 522306009403 oxyanion hole (OAH) forming residues; other site 522306009404 trimer interface [polypeptide binding]; other site 522306009405 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 522306009406 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 522306009407 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 522306009408 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 522306009409 active site 522306009410 intersubunit interface [polypeptide binding]; other site 522306009411 zinc binding site [ion binding]; other site 522306009412 Na+ binding site [ion binding]; other site 522306009413 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 522306009414 active site 522306009415 ADP/pyrophosphate binding site [chemical binding]; other site 522306009416 dimerization interface [polypeptide binding]; other site 522306009417 allosteric effector site; other site 522306009418 fructose-1,6-bisphosphate binding site; other site 522306009419 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 522306009420 Ligand binding site; other site 522306009421 metal-binding site 522306009422 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 522306009423 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 522306009424 XdhC Rossmann domain; Region: XdhC_C; pfam13478 522306009425 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 522306009426 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 522306009427 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 522306009428 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 522306009429 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 522306009430 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 522306009431 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 522306009432 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 522306009433 Flagellin N-methylase; Region: FliB; cl00497 522306009434 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 522306009435 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 522306009436 active site 522306009437 catalytic tetrad [active] 522306009438 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 522306009439 Protocatechuate 3,4-dioxygenase (3,4-PCD) catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and beta-subunit and an Fe3+ ion...; Region: 3,4-PCD; cd03459 522306009440 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 522306009441 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 522306009442 Helix-turn-helix domains; Region: HTH; cl00088 522306009443 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306009444 dimerization interface [polypeptide binding]; other site 522306009445 LysE type translocator; Region: LysE; cl00565 522306009446 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 522306009447 MoaE interaction surface [polypeptide binding]; other site 522306009448 MoeB interaction surface [polypeptide binding]; other site 522306009449 thiocarboxylated glycine; other site 522306009450 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 522306009451 putative recombination protein RecB; Provisional; Region: PRK13909 522306009452 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 522306009453 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 522306009454 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 522306009455 Putative motility protein; Region: YjfB_motility; pfam14070 522306009456 Putative exonuclease, RdgC; Region: RdgC; cl01122 522306009457 Transposase IS200 like; Region: Y1_Tnp; cl00848 522306009458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 522306009459 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 522306009460 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 522306009461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 522306009462 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306009463 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 522306009464 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 522306009465 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 522306009466 putative active site [active] 522306009467 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 522306009468 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 522306009469 active site 522306009470 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 522306009471 phosphorylation site [posttranslational modification] 522306009472 intermolecular recognition site; other site 522306009473 dimerization interface [polypeptide binding]; other site 522306009474 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 522306009475 putative active site [active] 522306009476 heme pocket [chemical binding]; other site 522306009477 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306009478 metal binding site [ion binding]; metal-binding site 522306009479 active site 522306009480 I-site; other site 522306009481 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 522306009482 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306009483 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 522306009484 dimer interface [polypeptide binding]; other site 522306009485 phosphorylation site [posttranslational modification] 522306009486 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 522306009487 ATP binding site [chemical binding]; other site 522306009488 Mg2+ binding site [ion binding]; other site 522306009489 G-X-G motif; other site 522306009490 Response regulator receiver domain; Region: Response_reg; pfam00072 522306009491 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 522306009492 active site 522306009493 phosphorylation site [posttranslational modification] 522306009494 intermolecular recognition site; other site 522306009495 dimerization interface [polypeptide binding]; other site 522306009496 NMT1-like family; Region: NMT1_2; cl15260 522306009497 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 522306009498 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 522306009499 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 522306009500 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306009501 catalytic residue [active] 522306009502 Protein of unknown function (DUF808); Region: DUF808; cl01002 522306009503 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 522306009504 glutathionine S-transferase; Provisional; Region: PRK10542 522306009505 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 522306009506 C-terminal domain interface [polypeptide binding]; other site 522306009507 GSH binding site (G-site) [chemical binding]; other site 522306009508 dimer interface [polypeptide binding]; other site 522306009509 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 522306009510 dimer interface [polypeptide binding]; other site 522306009511 N-terminal domain interface [polypeptide binding]; other site 522306009512 substrate binding pocket (H-site) [chemical binding]; other site 522306009513 Transposase IS200 like; Region: Y1_Tnp; cl00848 522306009514 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 522306009515 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 522306009516 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 522306009517 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 522306009518 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 522306009519 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 522306009520 active site 522306009521 catalytic residues [active] 522306009522 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 522306009523 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306009524 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306009525 Integrase core domain; Region: rve; cl01316 522306009526 putative glycosyl transferase; Provisional; Region: PRK10307 522306009527 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 522306009528 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 522306009529 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 522306009530 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 522306009531 putative NAD(P) binding site [chemical binding]; other site 522306009532 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 522306009533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009534 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 522306009535 O-Antigen ligase; Region: Wzy_C; cl04850 522306009536 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 522306009537 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 522306009538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009539 Uncharacterized conserved protein containing a coiled-coil domain [Function unknown]; Region: COG5493 522306009540 Protein of unknown function (DUF1626); Region: DUF1626; pfam07788 522306009541 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 522306009542 active site lid residues [active] 522306009543 substrate binding pocket [chemical binding]; other site 522306009544 catalytic residues [active] 522306009545 substrate-Mg2+ binding site; other site 522306009546 aspartate-rich region 1; other site 522306009547 aspartate-rich region 2; other site 522306009548 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 522306009549 active site lid residues [active] 522306009550 substrate binding pocket [chemical binding]; other site 522306009551 catalytic residues [active] 522306009552 substrate-Mg2+ binding site; other site 522306009553 aspartate-rich region 1; other site 522306009554 aspartate-rich region 2; other site 522306009555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009556 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 522306009557 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 522306009558 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 522306009559 Walker A/P-loop; other site 522306009560 ATP binding site [chemical binding]; other site 522306009561 Q-loop/lid; other site 522306009562 ABC transporter signature motif; other site 522306009563 Walker B; other site 522306009564 D-loop; other site 522306009565 H-loop/switch region; other site 522306009566 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 522306009567 active site 522306009568 catalytic triad [active] 522306009569 oxyanion hole [active] 522306009570 switch loop; other site 522306009571 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 522306009572 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 522306009573 active site residue [active] 522306009574 OsmC-like protein; Region: OsmC; cl00767 522306009575 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 522306009576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009577 CoA-ligase; Region: Ligase_CoA; cl02894 522306009578 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306009579 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 522306009580 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306009581 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 522306009582 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 522306009583 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 522306009584 Clp amino terminal domain; Region: Clp_N; pfam02861 522306009585 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 522306009586 Walker A motif; other site 522306009587 ATP binding site [chemical binding]; other site 522306009588 Walker B motif; other site 522306009589 arginine finger; other site 522306009590 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 522306009591 Walker A motif; other site 522306009592 ATP binding site [chemical binding]; other site 522306009593 Walker B motif; other site 522306009594 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 522306009595 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 522306009596 MoaE homodimer interface [polypeptide binding]; other site 522306009597 MoaD interaction [polypeptide binding]; other site 522306009598 active site residues [active] 522306009599 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 522306009600 MoaE interaction surface [polypeptide binding]; other site 522306009601 MoeB interaction surface [polypeptide binding]; other site 522306009602 thiocarboxylated glycine; other site 522306009603 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 522306009604 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 522306009605 dimer interface [polypeptide binding]; other site 522306009606 putative functional site; other site 522306009607 putative MPT binding site; other site 522306009608 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 522306009609 Walker A motif; other site 522306009610 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 522306009611 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 522306009612 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306009613 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306009614 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 522306009615 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 522306009616 Sel1 repeat; Region: Sel1; cl02723 522306009617 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 522306009618 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522306009619 catalytic residue [active] 522306009620 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 522306009621 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 522306009622 NAD binding site [chemical binding]; other site 522306009623 substrate binding site [chemical binding]; other site 522306009624 homodimer interface [polypeptide binding]; other site 522306009625 active site 522306009626 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 522306009627 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 522306009628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009629 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 522306009630 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 522306009631 binding surface 522306009632 TPR motif; other site 522306009633 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306009634 binding surface 522306009635 TPR motif; other site 522306009636 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306009637 TPR motif; other site 522306009638 binding surface 522306009639 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306009640 TPR motif; other site 522306009641 binding surface 522306009642 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306009643 binding surface 522306009644 TPR motif; other site 522306009645 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306009646 binding surface 522306009647 TPR motif; other site 522306009648 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306009649 binding surface 522306009650 TPR motif; other site 522306009651 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 522306009652 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 522306009653 active site 522306009654 phosphorylation site [posttranslational modification] 522306009655 intermolecular recognition site; other site 522306009656 dimerization interface [polypeptide binding]; other site 522306009657 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 522306009658 Walker A motif; other site 522306009659 ATP binding site [chemical binding]; other site 522306009660 Walker B motif; other site 522306009661 arginine finger; other site 522306009662 OpgC protein; Region: OpgC_C; cl00792 522306009663 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 522306009664 GAF domain; Region: GAF; cl15785 522306009665 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 522306009666 dimer interface [polypeptide binding]; other site 522306009667 phosphorylation site [posttranslational modification] 522306009668 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 522306009669 ATP binding site [chemical binding]; other site 522306009670 Mg2+ binding site [ion binding]; other site 522306009671 G-X-G motif; other site 522306009672 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 522306009673 Bacterial sugar transferase; Region: Bac_transf; cl00939 522306009674 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 522306009675 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 522306009676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009678 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306009679 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 522306009680 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 522306009681 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 522306009682 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 522306009683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009684 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 522306009685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009686 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 522306009687 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 522306009688 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 522306009689 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 522306009690 NAD binding site [chemical binding]; other site 522306009691 substrate binding site [chemical binding]; other site 522306009692 active site 522306009693 putative formyltransferase; Provisional; Region: PRK06988 522306009694 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 522306009695 active site 522306009696 substrate binding site [chemical binding]; other site 522306009697 cosubstrate binding site; other site 522306009698 catalytic site [active] 522306009699 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 522306009700 active site 522306009701 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 522306009702 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 522306009703 Ligand binding site; other site 522306009704 Putative Catalytic site; other site 522306009705 DXD motif; other site 522306009706 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 522306009707 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 522306009708 inhibitor-cofactor binding pocket; inhibition site 522306009709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306009710 catalytic residue [active] 522306009711 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 522306009712 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 522306009713 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 522306009714 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 522306009715 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 522306009716 active site 522306009717 phosphorylation site [posttranslational modification] 522306009718 intermolecular recognition site; other site 522306009719 dimerization interface [polypeptide binding]; other site 522306009720 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 522306009721 DNA binding site [nucleotide binding] 522306009722 sensor protein QseC; Provisional; Region: PRK10337 522306009723 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 522306009724 dimer interface [polypeptide binding]; other site 522306009725 phosphorylation site [posttranslational modification] 522306009726 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 522306009727 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 522306009728 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 522306009729 putative substrate binding site [chemical binding]; other site 522306009730 putative ATP binding site [chemical binding]; other site 522306009731 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 522306009732 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 522306009733 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 522306009734 dimerization interface [polypeptide binding]; other site 522306009735 ATP binding site [chemical binding]; other site 522306009736 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 522306009737 dimerization interface [polypeptide binding]; other site 522306009738 ATP binding site [chemical binding]; other site 522306009739 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 522306009740 conserved cys residue [active] 522306009741 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 522306009742 PPIC-type PPIASE domain; Region: Rotamase; cl08278 522306009743 BolA-like protein; Region: BolA; cl00386 522306009744 YCII-related domain; Region: YCII; cl00999 522306009745 Intracellular septation protein A; Region: IspA; cl01098 522306009746 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 522306009747 putative deacylase active site [active] 522306009748 PilZ domain; Region: PilZ; cl01260 522306009749 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 522306009750 hypothetical protein; Provisional; Region: PRK06132 522306009751 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 522306009752 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 522306009753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306009754 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306009755 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 522306009756 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 522306009757 MutS domain I; Region: MutS_I; pfam01624 522306009758 MutS domain II; Region: MutS_II; pfam05188 522306009759 MutS family domain IV; Region: MutS_IV; pfam05190 522306009760 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 522306009761 Walker A/P-loop; other site 522306009762 ATP binding site [chemical binding]; other site 522306009763 Q-loop/lid; other site 522306009764 ABC transporter signature motif; other site 522306009765 Walker B; other site 522306009766 D-loop; other site 522306009767 H-loop/switch region; other site 522306009768 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 522306009769 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 522306009770 putative ligand binding site [chemical binding]; other site 522306009771 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 522306009772 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306009773 Switch I region; other site 522306009774 G3 box; other site 522306009775 Switch II region; other site 522306009776 G4 box; other site 522306009777 G5 box; other site 522306009778 Nucleoside recognition; Region: Gate; cl00486 522306009779 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 522306009780 Nucleoside recognition; Region: Gate; cl00486 522306009781 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 522306009782 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 522306009783 catalytic triad [active] 522306009784 Septum formation initiator; Region: DivIC; cl11433 522306009785 enolase; Provisional; Region: eno; PRK00077 522306009786 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 522306009787 dimer interface [polypeptide binding]; other site 522306009788 metal binding site [ion binding]; metal-binding site 522306009789 substrate binding pocket [chemical binding]; other site 522306009790 NeuB family; Region: NeuB; cl00496 522306009791 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 522306009792 CTP synthetase; Validated; Region: pyrG; PRK05380 522306009793 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 522306009794 Catalytic site [active] 522306009795 active site 522306009796 UTP binding site [chemical binding]; other site 522306009797 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 522306009798 active site 522306009799 putative oxyanion hole; other site 522306009800 catalytic triad [active] 522306009801 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 522306009802 Isochorismatase family; Region: Isochorismatase; pfam00857 522306009803 catalytic triad [active] 522306009804 dimer interface [polypeptide binding]; other site 522306009805 conserved cis-peptide bond; other site 522306009806 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522306009807 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 522306009808 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 522306009809 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 522306009810 AMP-binding enzyme; Region: AMP-binding; cl15778 522306009811 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306009812 Ferredoxin [Energy production and conversion]; Region: COG1146 522306009813 4Fe-4S binding domain; Region: Fer4; cl02805 522306009814 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 522306009815 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 522306009816 catalytic residues [active] 522306009817 transcription termination factor Rho; Provisional; Region: rho; PRK09376 522306009818 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 522306009819 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 522306009820 RNA binding site [nucleotide binding]; other site 522306009821 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 522306009822 multimer interface [polypeptide binding]; other site 522306009823 Walker A motif; other site 522306009824 ATP binding site [chemical binding]; other site 522306009825 Walker B motif; other site 522306009826 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 522306009827 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 522306009828 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 522306009829 putative active site [active] 522306009830 putative substrate binding site [chemical binding]; other site 522306009831 catalytic site [active] 522306009832 dimer interface [polypeptide binding]; other site 522306009833 Peptidase family M48; Region: Peptidase_M48; cl12018 522306009834 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 522306009835 aromatic arch; other site 522306009836 DCoH dimer interaction site [polypeptide binding]; other site 522306009837 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 522306009838 DCoH tetramer interaction site [polypeptide binding]; other site 522306009839 substrate binding site [chemical binding]; other site 522306009840 GTPase RsgA; Reviewed; Region: PRK00098 522306009841 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 522306009842 RNA binding site [nucleotide binding]; other site 522306009843 homodimer interface [polypeptide binding]; other site 522306009844 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 522306009845 GTPase/Zn-binding domain interface [polypeptide binding]; other site 522306009846 GTP/Mg2+ binding site [chemical binding]; other site 522306009847 G4 box; other site 522306009848 G5 box; other site 522306009849 G1 box; other site 522306009850 Switch I region; other site 522306009851 G2 box; other site 522306009852 G3 box; other site 522306009853 Switch II region; other site 522306009854 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 522306009855 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 522306009856 acyl-CoA binding pocket [chemical binding]; other site 522306009857 CoA binding site [chemical binding]; other site 522306009858 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 522306009859 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 522306009860 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 522306009861 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522306009862 Helix-turn-helix domains; Region: HTH; cl00088 522306009863 Bacterial transcriptional repressor; Region: TetR; pfam13972 522306009864 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 522306009865 nucleophile elbow; other site 522306009866 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 522306009867 short chain dehydrogenase; Provisional; Region: PRK07201 522306009868 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 522306009869 putative NAD(P) binding site [chemical binding]; other site 522306009870 active site 522306009871 putative substrate binding site [chemical binding]; other site 522306009872 classical (c) SDRs; Region: SDR_c; cd05233 522306009873 NAD(P) binding site [chemical binding]; other site 522306009874 active site 522306009875 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 522306009876 putative RNA binding sites [nucleotide binding]; other site 522306009877 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 522306009878 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 522306009879 GTP binding site; other site 522306009880 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 522306009881 16S/18S rRNA binding site [nucleotide binding]; other site 522306009882 S13e-L30e interaction site [polypeptide binding]; other site 522306009883 25S rRNA binding site [nucleotide binding]; other site 522306009884 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 522306009885 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 522306009886 RNase E interface [polypeptide binding]; other site 522306009887 trimer interface [polypeptide binding]; other site 522306009888 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 522306009889 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 522306009890 RNase E interface [polypeptide binding]; other site 522306009891 trimer interface [polypeptide binding]; other site 522306009892 active site 522306009893 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 522306009894 putative nucleic acid binding region [nucleotide binding]; other site 522306009895 G-X-X-G motif; other site 522306009896 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 522306009897 RNA binding site [nucleotide binding]; other site 522306009898 domain interface; other site 522306009899 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 522306009900 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 522306009901 non-specific DNA binding site [nucleotide binding]; other site 522306009902 salt bridge; other site 522306009903 sequence-specific DNA binding site [nucleotide binding]; other site 522306009904 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 522306009905 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 522306009906 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522306009907 DNA-binding site [nucleotide binding]; DNA binding site 522306009908 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 522306009909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306009910 homodimer interface [polypeptide binding]; other site 522306009911 catalytic residue [active] 522306009912 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 522306009913 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 522306009914 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 522306009915 N-terminal domain interface [polypeptide binding]; other site 522306009916 dimer interface [polypeptide binding]; other site 522306009917 substrate binding pocket (H-site) [chemical binding]; other site 522306009918 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 522306009919 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 522306009920 Helix-turn-helix domains; Region: HTH; cl00088 522306009921 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 522306009922 dimerization interface [polypeptide binding]; other site 522306009923 substrate binding pocket [chemical binding]; other site 522306009924 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 522306009925 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 522306009926 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 522306009927 Walker A/P-loop; other site 522306009928 ATP binding site [chemical binding]; other site 522306009929 Q-loop/lid; other site 522306009930 ABC transporter signature motif; other site 522306009931 Walker B; other site 522306009932 D-loop; other site 522306009933 H-loop/switch region; other site 522306009934 MAPEG family; Region: MAPEG; cl09190 522306009935 RDD family; Region: RDD; cl00746 522306009936 sensory histidine kinase CreC; Provisional; Region: PRK11100 522306009937 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306009938 metal binding site [ion binding]; metal-binding site 522306009939 active site 522306009940 I-site; other site 522306009941 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 522306009942 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 522306009943 LysE type translocator; Region: LysE; cl00565 522306009944 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 522306009945 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 522306009946 ATP binding site [chemical binding]; other site 522306009947 putative Mg++ binding site [ion binding]; other site 522306009948 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 522306009949 nucleotide binding region [chemical binding]; other site 522306009950 ATP-binding site [chemical binding]; other site 522306009951 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 522306009952 PglZ domain; Region: PglZ; pfam08665 522306009953 primosomal protein DnaI; Reviewed; Region: PRK08939 522306009954 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; cl00083 522306009955 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 522306009956 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306009957 Walker A/P-loop; other site 522306009958 ATP binding site [chemical binding]; other site 522306009959 Restriction endonuclease; Region: Mrr_cat; cl00516 522306009960 Catalytic domain of Protein Kinases; Region: PKc; cd00180 522306009961 active site 522306009962 ATP binding site [chemical binding]; other site 522306009963 substrate binding site [chemical binding]; other site 522306009964 activation loop (A-loop); other site 522306009965 Protein kinase domain; Region: Pkinase; pfam00069 522306009966 Catalytic domain of Protein Kinases; Region: PKc; cd00180 522306009967 active site 522306009968 ATP binding site [chemical binding]; other site 522306009969 substrate binding site [chemical binding]; other site 522306009970 activation loop (A-loop); other site 522306009971 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 522306009972 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 522306009973 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 522306009974 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306009975 Walker A motif; other site 522306009976 ATP binding site [chemical binding]; other site 522306009977 Walker B motif; other site 522306009978 arginine finger; other site 522306009979 Helix-turn-helix domains; Region: HTH; cl00088 522306009980 Integrase core domain; Region: rve; cl01316 522306009981 Integrase core domain; Region: rve_3; cl15866 522306009982 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 522306009983 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 522306009984 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 522306009985 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 522306009986 MoxR-like ATPases [General function prediction only]; Region: COG0714 522306009987 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 522306009988 Walker A motif; other site 522306009989 ATP binding site [chemical binding]; other site 522306009990 Walker B motif; other site 522306009991 arginine finger; other site 522306009992 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 522306009993 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 522306009994 Integral membrane protein DUF95; Region: DUF95; cl00572 522306009995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 522306009996 Protein of unknown function (DUF330); Region: DUF330; cl01135 522306009997 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 522306009998 mce related protein; Region: MCE; pfam02470 522306009999 mce related protein; Region: MCE; pfam02470 522306010000 mce related protein; Region: MCE; pfam02470 522306010001 Paraquat-inducible protein A; Region: PqiA; pfam04403 522306010002 Paraquat-inducible protein A; Region: PqiA; pfam04403 522306010003 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 522306010004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4995 522306010005 CHAT domain; Region: CHAT; pfam12770 522306010006 hypothetical protein; Provisional; Region: PRK11281 522306010007 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 522306010008 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 522306010009 Mechanosensitive ion channel; Region: MS_channel; pfam00924 522306010010 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 522306010011 active site 522306010012 tetramer interface; other site 522306010013 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 522306010014 Helix-turn-helix domains; Region: HTH; cl00088 522306010015 Helix-turn-helix domains; Region: HTH; cl00088 522306010016 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 522306010017 Helix-turn-helix domains; Region: HTH; cl00088 522306010018 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 522306010019 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 522306010020 catalytic residues [active] 522306010021 ABC-2 type transporter; Region: ABC2_membrane; cl11417 522306010022 NosL; Region: NosL; cl01769 522306010023 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 522306010024 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 522306010025 Walker A/P-loop; other site 522306010026 ATP binding site [chemical binding]; other site 522306010027 Q-loop/lid; other site 522306010028 ABC transporter signature motif; other site 522306010029 Walker B; other site 522306010030 D-loop; other site 522306010031 H-loop/switch region; other site 522306010032 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 522306010033 4Fe-4S binding domain; Region: Fer4_5; pfam12801 522306010034 4Fe-4S binding domain; Region: Fer4; cl02805 522306010035 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 522306010036 4Fe-4S binding domain; Region: Fer4; cl02805 522306010037 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 522306010038 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 522306010039 Pectate lyase; Region: Pec_lyase_C; cl01593 522306010040 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 522306010041 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 522306010042 Cytochrome c; Region: Cytochrom_C; cl11414 522306010043 Cytochrome c; Region: Cytochrom_C; cl11414 522306010044 Cytochrome c; Region: Cytochrom_C; cl11414 522306010045 nitrous-oxide reductase; Validated; Region: PRK02888 522306010046 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 522306010047 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 522306010048 Cu(I) binding site [ion binding]; other site 522306010049 Protein of unknown function (DUF461); Region: DUF461; cl01071 522306010050 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 522306010051 catalytic residues [active] 522306010052 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 522306010053 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 522306010054 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 522306010055 ligand binding site [chemical binding]; other site 522306010056 flexible hinge region; other site 522306010057 Helix-turn-helix domains; Region: HTH; cl00088 522306010058 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 522306010059 putative active site [active] 522306010060 putative triphosphate binding site [ion binding]; other site 522306010061 putative metal binding residues [ion binding]; other site 522306010062 CHAD domain; Region: CHAD; cl10506 522306010063 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 522306010064 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 522306010065 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522306010066 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 522306010067 substrate binding pocket [chemical binding]; other site 522306010068 membrane-bound complex binding site; other site 522306010069 hinge residues; other site 522306010070 putative diguanylate cyclase; Provisional; Region: PRK09776 522306010071 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 522306010072 PAS domain; Region: PAS_9; pfam13426 522306010073 putative active site [active] 522306010074 heme pocket [chemical binding]; other site 522306010075 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 522306010076 PAS domain; Region: PAS_9; pfam13426 522306010077 putative active site [active] 522306010078 heme pocket [chemical binding]; other site 522306010079 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306010080 metal binding site [ion binding]; metal-binding site 522306010081 active site 522306010082 I-site; other site 522306010083 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 522306010084 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 522306010085 dimerization interface [polypeptide binding]; other site 522306010086 putative DNA binding site [nucleotide binding]; other site 522306010087 putative Zn2+ binding site [ion binding]; other site 522306010088 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 522306010089 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 522306010090 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 522306010091 putative acyl-acceptor binding pocket; other site 522306010092 UbiA prenyltransferase family; Region: UbiA; cl00337 522306010093 Predicted membrane protein [Function unknown]; Region: COG3671 522306010094 PAS fold; Region: PAS_3; pfam08447 522306010095 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 522306010096 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306010097 PAS domain; Region: PAS_9; pfam13426 522306010098 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 522306010099 PAS domain; Region: PAS_9; pfam13426 522306010100 putative active site [active] 522306010101 heme pocket [chemical binding]; other site 522306010102 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522306010103 dimer interface [polypeptide binding]; other site 522306010104 phosphorylation site [posttranslational modification] 522306010105 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 522306010106 ATP binding site [chemical binding]; other site 522306010107 Mg2+ binding site [ion binding]; other site 522306010108 G-X-G motif; other site 522306010109 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 522306010110 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 522306010111 active site 522306010112 phosphorylation site [posttranslational modification] 522306010113 intermolecular recognition site; other site 522306010114 dimerization interface [polypeptide binding]; other site 522306010115 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522306010116 DNA binding residues [nucleotide binding] 522306010117 dimerization interface [polypeptide binding]; other site 522306010118 Response regulator receiver domain; Region: Response_reg; pfam00072 522306010119 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 522306010120 active site 522306010121 phosphorylation site [posttranslational modification] 522306010122 intermolecular recognition site; other site 522306010123 dimerization interface [polypeptide binding]; other site 522306010124 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 522306010125 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306010126 dimer interface [polypeptide binding]; other site 522306010127 putative CheW interface [polypeptide binding]; other site 522306010128 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 522306010129 anti sigma factor interaction site; other site 522306010130 regulatory phosphorylation site [posttranslational modification]; other site 522306010131 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 522306010132 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 522306010133 putative binding surface; other site 522306010134 active site 522306010135 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 522306010136 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 522306010137 ATP binding site [chemical binding]; other site 522306010138 Mg2+ binding site [ion binding]; other site 522306010139 G-X-G motif; other site 522306010140 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 522306010141 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 522306010142 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 522306010143 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 522306010144 dimerization interface [polypeptide binding]; other site 522306010145 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306010146 dimer interface [polypeptide binding]; other site 522306010147 putative CheW interface [polypeptide binding]; other site 522306010148 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 522306010149 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 522306010150 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306010151 dimer interface [polypeptide binding]; other site 522306010152 putative CheW interface [polypeptide binding]; other site 522306010153 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 522306010154 methyl-accepting protein IV; Provisional; Region: PRK09793 522306010155 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306010156 dimer interface [polypeptide binding]; other site 522306010157 putative CheW interface [polypeptide binding]; other site 522306010158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 522306010159 Cache domain; Region: Cache_2; cl07034 522306010160 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 522306010161 dimerization interface [polypeptide binding]; other site 522306010162 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306010163 dimer interface [polypeptide binding]; other site 522306010164 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 522306010165 putative CheW interface [polypeptide binding]; other site 522306010166 PAS fold; Region: PAS_4; pfam08448 522306010167 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306010168 CheD chemotactic sensory transduction; Region: CheD; cl00810 522306010169 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 522306010170 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 522306010171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306010172 HDOD domain; Region: HDOD; pfam08668 522306010173 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306010174 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 522306010175 Cache domain; Region: Cache_2; cl07034 522306010176 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522306010177 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306010178 dimer interface [polypeptide binding]; other site 522306010179 putative CheW interface [polypeptide binding]; other site 522306010180 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 522306010181 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 522306010182 generic binding surface II; other site 522306010183 ssDNA binding site; other site 522306010184 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 522306010185 ATP binding site [chemical binding]; other site 522306010186 putative Mg++ binding site [ion binding]; other site 522306010187 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 522306010188 nucleotide binding region [chemical binding]; other site 522306010189 ATP-binding site [chemical binding]; other site 522306010190 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 522306010191 homotrimer interaction site [polypeptide binding]; other site 522306010192 putative active site [active] 522306010193 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 522306010194 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 522306010195 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 522306010196 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 522306010197 dimer interface [polypeptide binding]; other site 522306010198 active site 522306010199 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 522306010200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306010201 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 522306010202 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 522306010203 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 522306010204 substrate binding site [chemical binding]; other site 522306010205 oxyanion hole (OAH) forming residues; other site 522306010206 trimer interface [polypeptide binding]; other site 522306010207 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 522306010208 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 522306010209 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 522306010210 substrate binding site [chemical binding]; other site 522306010211 oxyanion hole (OAH) forming residues; other site 522306010212 trimer interface [polypeptide binding]; other site 522306010213 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 522306010214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306010215 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 522306010216 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 522306010217 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 522306010218 dimer interface [polypeptide binding]; other site 522306010219 active site 522306010220 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 522306010221 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 522306010222 active site 522306010223 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 522306010224 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522306010225 Helix-turn-helix domains; Region: HTH; cl00088 522306010226 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 522306010227 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 522306010228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306010229 Walker A/P-loop; other site 522306010230 ATP binding site [chemical binding]; other site 522306010231 Q-loop/lid; other site 522306010232 ABC transporter signature motif; other site 522306010233 Walker B; other site 522306010234 D-loop; other site 522306010235 H-loop/switch region; other site 522306010236 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 522306010237 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 522306010238 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 522306010239 alphaNTD homodimer interface [polypeptide binding]; other site 522306010240 alphaNTD - beta interaction site [polypeptide binding]; other site 522306010241 alphaNTD - beta' interaction site [polypeptide binding]; other site 522306010242 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 522306010243 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 522306010244 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 522306010245 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 522306010246 RNA binding surface [nucleotide binding]; other site 522306010247 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 522306010248 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 522306010249 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 522306010250 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 522306010251 rRNA binding site [nucleotide binding]; other site 522306010252 predicted 30S ribosome binding site; other site 522306010253 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 522306010254 SecY translocase; Region: SecY; pfam00344 522306010255 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 522306010256 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 522306010257 23S rRNA binding site [nucleotide binding]; other site 522306010258 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 522306010259 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 522306010260 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 522306010261 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 522306010262 5S rRNA interface [nucleotide binding]; other site 522306010263 23S rRNA interface [nucleotide binding]; other site 522306010264 L5 interface [polypeptide binding]; other site 522306010265 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 522306010266 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 522306010267 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 522306010268 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 522306010269 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 522306010270 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 522306010271 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 522306010272 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 522306010273 KOW motif; Region: KOW; cl00354 522306010274 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 522306010275 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 522306010276 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 522306010277 23S rRNA interface [nucleotide binding]; other site 522306010278 putative translocon interaction site; other site 522306010279 signal recognition particle (SRP54) interaction site; other site 522306010280 L23 interface [polypeptide binding]; other site 522306010281 trigger factor interaction site; other site 522306010282 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 522306010283 23S rRNA interface [nucleotide binding]; other site 522306010284 5S rRNA interface [nucleotide binding]; other site 522306010285 putative antibiotic binding site [chemical binding]; other site 522306010286 L25 interface [polypeptide binding]; other site 522306010287 L27 interface [polypeptide binding]; other site 522306010288 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 522306010289 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 522306010290 G-X-X-G motif; other site 522306010291 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 522306010292 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 522306010293 putative translocon binding site; other site 522306010294 protein-rRNA interface [nucleotide binding]; other site 522306010295 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 522306010296 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 522306010297 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 522306010298 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 522306010299 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 522306010300 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 522306010301 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 522306010302 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 522306010303 elongation factor Tu; Reviewed; Region: PRK00049 522306010304 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 522306010305 G1 box; other site 522306010306 GEF interaction site [polypeptide binding]; other site 522306010307 GTP/Mg2+ binding site [chemical binding]; other site 522306010308 Switch I region; other site 522306010309 G2 box; other site 522306010310 G3 box; other site 522306010311 Switch II region; other site 522306010312 G4 box; other site 522306010313 G5 box; other site 522306010314 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 522306010315 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 522306010316 Antibiotic Binding Site [chemical binding]; other site 522306010317 elongation factor G; Reviewed; Region: PRK00007 522306010318 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 522306010319 G1 box; other site 522306010320 putative GEF interaction site [polypeptide binding]; other site 522306010321 GTP/Mg2+ binding site [chemical binding]; other site 522306010322 Switch I region; other site 522306010323 G2 box; other site 522306010324 G3 box; other site 522306010325 Switch II region; other site 522306010326 G4 box; other site 522306010327 G5 box; other site 522306010328 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 522306010329 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 522306010330 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 522306010331 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 522306010332 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 522306010333 S17 interaction site [polypeptide binding]; other site 522306010334 S8 interaction site; other site 522306010335 16S rRNA interaction site [nucleotide binding]; other site 522306010336 streptomycin interaction site [chemical binding]; other site 522306010337 23S rRNA interaction site [nucleotide binding]; other site 522306010338 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 522306010339 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 522306010340 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 522306010341 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 522306010342 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 522306010343 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 522306010344 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 522306010345 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 522306010346 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 522306010347 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 522306010348 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 522306010349 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 522306010350 DNA binding site [nucleotide binding] 522306010351 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 522306010352 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 522306010353 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 522306010354 DNA-directed RNA polymerase, beta subunit; Region: rpoB; TIGR02013 522306010355 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 522306010356 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 522306010357 RPB11 interaction site [polypeptide binding]; other site 522306010358 RPB12 interaction site [polypeptide binding]; other site 522306010359 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 522306010360 RPB3 interaction site [polypeptide binding]; other site 522306010361 RPB1 interaction site [polypeptide binding]; other site 522306010362 RPB11 interaction site [polypeptide binding]; other site 522306010363 RPB10 interaction site [polypeptide binding]; other site 522306010364 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 522306010365 peripheral dimer interface [polypeptide binding]; other site 522306010366 core dimer interface [polypeptide binding]; other site 522306010367 L10 interface [polypeptide binding]; other site 522306010368 L11 interface [polypeptide binding]; other site 522306010369 putative EF-Tu interaction site [polypeptide binding]; other site 522306010370 putative EF-G interaction site [polypeptide binding]; other site 522306010371 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 522306010372 23S rRNA interface [nucleotide binding]; other site 522306010373 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 522306010374 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 522306010375 mRNA/rRNA interface [nucleotide binding]; other site 522306010376 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 522306010377 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 522306010378 23S rRNA interface [nucleotide binding]; other site 522306010379 L7/L12 interface [polypeptide binding]; other site 522306010380 putative thiostrepton binding site; other site 522306010381 L25 interface [polypeptide binding]; other site 522306010382 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 522306010383 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 522306010384 putative homodimer interface [polypeptide binding]; other site 522306010385 KOW motif; Region: KOW; cl00354 522306010386 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 522306010387 elongation factor Tu; Reviewed; Region: PRK00049 522306010388 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 522306010389 G1 box; other site 522306010390 GEF interaction site [polypeptide binding]; other site 522306010391 GTP/Mg2+ binding site [chemical binding]; other site 522306010392 Switch I region; other site 522306010393 G2 box; other site 522306010394 G3 box; other site 522306010395 Switch II region; other site 522306010396 G4 box; other site 522306010397 G5 box; other site 522306010398 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 522306010399 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 522306010400 Antibiotic Binding Site [chemical binding]; other site 522306010401 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 522306010402 FAD binding domain; Region: FAD_binding_4; pfam01565 522306010403 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 522306010404 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 522306010405 dimer interface [polypeptide binding]; other site 522306010406 PYR/PP interface [polypeptide binding]; other site 522306010407 TPP binding site [chemical binding]; other site 522306010408 substrate binding site [chemical binding]; other site 522306010409 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 522306010410 TPP-binding site; other site 522306010411 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 522306010412 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306010413 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 522306010414 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 522306010415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306010416 Integrase core domain; Region: rve; cl01316 522306010417 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 522306010418 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 522306010419 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 522306010420 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 522306010421 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 522306010422 hydrophobic ligand binding site; other site 522306010423 PAS domain; Region: PAS_9; pfam13426 522306010424 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 522306010425 putative active site [active] 522306010426 heme pocket [chemical binding]; other site 522306010427 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 522306010428 LysE type translocator; Region: LysE; cl00565 522306010429 Excalibur calcium-binding domain; Region: Excalibur; cl05460 522306010430 NMT1-like family; Region: NMT1_2; cl15260 522306010431 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 522306010432 putative hydrophobic ligand binding site [chemical binding]; other site 522306010433 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 522306010434 SEC-C motif; Region: SEC-C; pfam02810 522306010435 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 522306010436 S-adenosylmethionine binding site [chemical binding]; other site 522306010437 Low molecular weight phosphatase family; Region: LMWPc; cl00105 522306010438 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 522306010439 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 522306010440 putative DNA binding site [nucleotide binding]; other site 522306010441 putative Zn2+ binding site [ion binding]; other site 522306010442 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 522306010443 Ferritin-like domain; Region: Ferritin; pfam00210 522306010444 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 522306010445 dimerization interface [polypeptide binding]; other site 522306010446 DPS ferroxidase diiron center [ion binding]; other site 522306010447 ion pore; other site 522306010448 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 522306010449 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 522306010450 NADP binding site [chemical binding]; other site 522306010451 dimer interface [polypeptide binding]; other site 522306010452 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 522306010453 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 522306010454 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 522306010455 conserved cys residue [active] 522306010456 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 522306010457 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 522306010458 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 522306010459 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 522306010460 catalytic triad [active] 522306010461 conserved cis-peptide bond; other site 522306010462 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 522306010463 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 522306010464 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 522306010465 Transcriptional regulator; Region: Transcrip_reg; cl00361 522306010466 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 522306010467 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 522306010468 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 522306010469 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 522306010470 RNA/DNA binding site [nucleotide binding]; other site 522306010471 RRM dimerization site [polypeptide binding]; other site 522306010472 TIR domain; Region: TIR_2; cl15770 522306010473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306010474 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 522306010475 structural tetrad; other site 522306010476 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 522306010477 structural tetrad; other site 522306010478 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 522306010479 structural tetrad; other site 522306010480 Sodium:solute symporter family; Region: SSF; cl00456 522306010481 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 522306010482 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 522306010483 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 522306010484 HSP70 interaction site [polypeptide binding]; other site 522306010485 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 522306010486 dimer interface [polypeptide binding]; other site 522306010487 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 522306010488 dimer interface [polypeptide binding]; other site 522306010489 [2Fe-2S] cluster binding site [ion binding]; other site 522306010490 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 522306010491 nodulation ABC transporter NodI; Provisional; Region: PRK13537 522306010492 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 522306010493 Walker A/P-loop; other site 522306010494 ATP binding site [chemical binding]; other site 522306010495 Q-loop/lid; other site 522306010496 ABC transporter signature motif; other site 522306010497 Walker B; other site 522306010498 D-loop; other site 522306010499 H-loop/switch region; other site 522306010500 ABC-2 type transporter; Region: ABC2_membrane; cl11417 522306010501 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 522306010502 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 522306010503 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 522306010504 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 522306010505 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 522306010506 DsbD alpha interface [polypeptide binding]; other site 522306010507 catalytic residues [active] 522306010508 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 522306010509 MgtE intracellular N domain; Region: MgtE_N; cl15244 522306010510 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 522306010511 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 522306010512 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 522306010513 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 522306010514 inhibitor-cofactor binding pocket; inhibition site 522306010515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306010516 catalytic residue [active] 522306010517 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 522306010518 thiamine phosphate binding site [chemical binding]; other site 522306010519 active site 522306010520 pyrophosphate binding site [ion binding]; other site 522306010521 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 522306010522 substrate binding site [chemical binding]; other site 522306010523 dimer interface [polypeptide binding]; other site 522306010524 ATP binding site [chemical binding]; other site 522306010525 Rubredoxin [Energy production and conversion]; Region: COG1773 522306010526 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 522306010527 iron binding site [ion binding]; other site 522306010528 Response regulator receiver domain; Region: Response_reg; pfam00072 522306010529 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 522306010530 active site 522306010531 phosphorylation site [posttranslational modification] 522306010532 intermolecular recognition site; other site 522306010533 dimerization interface [polypeptide binding]; other site 522306010534 Response regulator receiver domain; Region: Response_reg; pfam00072 522306010535 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 522306010536 active site 522306010537 phosphorylation site [posttranslational modification] 522306010538 intermolecular recognition site; other site 522306010539 dimerization interface [polypeptide binding]; other site 522306010540 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 522306010541 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 522306010542 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 522306010543 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522306010544 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306010545 dimer interface [polypeptide binding]; other site 522306010546 putative CheW interface [polypeptide binding]; other site 522306010547 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 522306010548 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 522306010549 putative binding surface; other site 522306010550 active site 522306010551 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 522306010552 putative binding surface; other site 522306010553 active site 522306010554 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 522306010555 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 522306010556 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 522306010557 ATP binding site [chemical binding]; other site 522306010558 Mg2+ binding site [ion binding]; other site 522306010559 G-X-G motif; other site 522306010560 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 522306010561 Response regulator receiver domain; Region: Response_reg; pfam00072 522306010562 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 522306010563 active site 522306010564 phosphorylation site [posttranslational modification] 522306010565 intermolecular recognition site; other site 522306010566 dimerization interface [polypeptide binding]; other site 522306010567 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 522306010568 DNA photolyase; Region: DNA_photolyase; pfam00875 522306010569 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 522306010570 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 522306010571 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 522306010572 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522306010573 active site 522306010574 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 522306010575 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 522306010576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306010577 dihydroorotase; Provisional; Region: PRK07627 522306010578 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 522306010579 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 522306010580 active site 522306010581 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 522306010582 YGGT family; Region: YGGT; cl00508 522306010583 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 522306010584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306010585 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 522306010586 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 522306010587 catalytic residue [active] 522306010588 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 522306010589 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 522306010590 Walker A motif; other site 522306010591 ATP binding site [chemical binding]; other site 522306010592 Walker B motif; other site 522306010593 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 522306010594 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 522306010595 Walker A motif; other site 522306010596 ATP binding site [chemical binding]; other site 522306010597 Walker B motif; other site 522306010598 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 522306010599 THUMP domain; Region: THUMP; cl12076 522306010600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306010601 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 522306010602 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 522306010603 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 522306010604 putative NAD(P) binding site [chemical binding]; other site 522306010605 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 522306010606 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 522306010607 catalytic loop [active] 522306010608 iron binding site [ion binding]; other site 522306010609 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 522306010610 FAD binding pocket [chemical binding]; other site 522306010611 FAD binding motif [chemical binding]; other site 522306010612 phosphate binding motif [ion binding]; other site 522306010613 beta-alpha-beta structure motif; other site 522306010614 NAD binding pocket [chemical binding]; other site 522306010615 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 522306010616 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 522306010617 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 522306010618 Walker A/P-loop; other site 522306010619 ATP binding site [chemical binding]; other site 522306010620 Q-loop/lid; other site 522306010621 ABC transporter signature motif; other site 522306010622 Walker B; other site 522306010623 D-loop; other site 522306010624 H-loop/switch region; other site 522306010625 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 522306010626 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 522306010627 Walker A/P-loop; other site 522306010628 ATP binding site [chemical binding]; other site 522306010629 Q-loop/lid; other site 522306010630 ABC transporter signature motif; other site 522306010631 Walker B; other site 522306010632 D-loop; other site 522306010633 H-loop/switch region; other site 522306010634 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 522306010635 TM-ABC transporter signature motif; other site 522306010636 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 522306010637 TM-ABC transporter signature motif; other site 522306010638 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 522306010639 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 522306010640 dimerization interface [polypeptide binding]; other site 522306010641 ligand binding site [chemical binding]; other site 522306010642 Cytochrome c; Region: Cytochrom_C; cl11414 522306010643 Dehydratase family; Region: ILVD_EDD; cl00340 522306010644 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 522306010645 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 522306010646 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 522306010647 dimer interface [polypeptide binding]; other site 522306010648 substrate binding site [chemical binding]; other site 522306010649 metal binding site [ion binding]; metal-binding site 522306010650 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 522306010651 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 522306010652 Walker A motif; other site 522306010653 ATP binding site [chemical binding]; other site 522306010654 Walker B motif; other site 522306010655 arginine finger; other site 522306010656 Integrase core domain; Region: rve; cl01316 522306010657 ParB-like nuclease domain; Region: ParBc; cl02129 522306010658 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 522306010659 Low molecular weight phosphatase family; Region: LMWPc; cd00115 522306010660 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 522306010661 active site 522306010662 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 522306010663 active site 522306010664 catalytic residues [active] 522306010665 metal binding site [ion binding]; metal-binding site 522306010666 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 522306010667 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522306010668 active site 522306010669 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 522306010670 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 522306010671 nucleotide binding pocket [chemical binding]; other site 522306010672 K-X-D-G motif; other site 522306010673 catalytic site [active] 522306010674 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 522306010675 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 522306010676 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 522306010677 FtsZ protein binding site [polypeptide binding]; other site 522306010678 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 522306010679 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 522306010680 Walker A/P-loop; other site 522306010681 ATP binding site [chemical binding]; other site 522306010682 Q-loop/lid; other site 522306010683 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 522306010684 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 522306010685 Q-loop/lid; other site 522306010686 ABC transporter signature motif; other site 522306010687 Walker B; other site 522306010688 D-loop; other site 522306010689 H-loop/switch region; other site 522306010690 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 522306010691 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 522306010692 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 522306010693 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 522306010694 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 522306010695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306010696 homodimer interface [polypeptide binding]; other site 522306010697 catalytic residue [active] 522306010698 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 522306010699 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 522306010700 trimer interface [polypeptide binding]; other site 522306010701 active site 522306010702 substrate binding site [chemical binding]; other site 522306010703 CoA binding site [chemical binding]; other site 522306010704 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 522306010705 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306010706 Walker A motif; other site 522306010707 ATP binding site [chemical binding]; other site 522306010708 Walker B motif; other site 522306010709 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 522306010710 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 522306010711 metal binding site [ion binding]; metal-binding site 522306010712 dimer interface [polypeptide binding]; other site 522306010713 HemK family putative methylases; Region: hemK_fam; TIGR00536 522306010714 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 522306010715 S-adenosylmethionine binding site [chemical binding]; other site 522306010716 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 522306010717 active site 522306010718 catalytic triad [active] 522306010719 oxyanion hole [active] 522306010720 switch loop; other site 522306010721 aminopeptidase N; Provisional; Region: pepN; PRK14015 522306010722 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 522306010723 active site 522306010724 Zn binding site [ion binding]; other site 522306010725 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 522306010726 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 522306010727 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 522306010728 Copper resistance protein D; Region: CopD; cl00563 522306010729 Protein of unknown function (DUF456); Region: DUF456; cl01069 522306010730 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306010731 metal binding site [ion binding]; metal-binding site 522306010732 active site 522306010733 I-site; other site 522306010734 Uncharacterized conserved protein [Function unknown]; Region: COG5361 522306010735 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 522306010736 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 522306010737 YaeQ protein; Region: YaeQ; cl01913 522306010738 Uncharacterized conserved protein [Function unknown]; Region: COG1912 522306010739 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 522306010740 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 522306010741 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 522306010742 trimer interface [polypeptide binding]; other site 522306010743 active site 522306010744 substrate binding site [chemical binding]; other site 522306010745 CoA binding site [chemical binding]; other site 522306010746 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 522306010747 phosphopeptide binding site; other site 522306010748 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 522306010749 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 522306010750 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 522306010751 Bacterial SH3 domain; Region: SH3_3; cl02551 522306010752 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 522306010753 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 522306010754 Walker A motif; other site 522306010755 ATP binding site [chemical binding]; other site 522306010756 Walker B motif; other site 522306010757 arginine finger; other site 522306010758 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 522306010759 Baseplate J-like protein; Region: Baseplate_J; cl01294 522306010760 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 522306010761 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 522306010762 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 522306010763 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 522306010764 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 522306010765 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 522306010766 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 522306010767 Helix-turn-helix domains; Region: HTH; cl00088 522306010768 Cytochrome c; Region: Cytochrom_C; cl11414 522306010769 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 522306010770 dinuclear metal binding motif [ion binding]; other site 522306010771 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 522306010772 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 522306010773 Walker A motif; other site 522306010774 ATP binding site [chemical binding]; other site 522306010775 Walker B motif; other site 522306010776 arginine finger; other site 522306010777 Helix-turn-helix domains; Region: HTH; cl00088 522306010778 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 522306010779 active site 522306010780 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 522306010781 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 522306010782 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 522306010783 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 522306010784 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 522306010785 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 522306010786 putative heme binding site [chemical binding]; other site 522306010787 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 522306010788 DNA polymerase IV; Validated; Region: PRK03352 522306010789 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 522306010790 active site 522306010791 DNA binding site [nucleotide binding] 522306010792 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 522306010793 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 522306010794 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306010795 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306010796 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306010797 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 522306010798 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306010799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306010800 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522306010801 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 522306010802 putative ADP-binding pocket [chemical binding]; other site 522306010803 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 522306010804 octamerization interface [polypeptide binding]; other site 522306010805 diferric-oxygen binding site [ion binding]; other site 522306010806 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 522306010807 dimer interface [polypeptide binding]; other site 522306010808 motif 1; other site 522306010809 active site 522306010810 motif 2; other site 522306010811 motif 3; other site 522306010812 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 522306010813 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 522306010814 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 522306010815 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 522306010816 active site 522306010817 motif I; other site 522306010818 motif II; other site 522306010819 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 522306010820 putative acyl-acceptor binding pocket; other site 522306010821 Protein of unknown function DUF45; Region: DUF45; cl00636 522306010822 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 522306010823 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 522306010824 dimer interface [polypeptide binding]; other site 522306010825 active site 522306010826 metal binding site [ion binding]; metal-binding site 522306010827 glutathione binding site [chemical binding]; other site 522306010828 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 522306010829 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_5; cd11352 522306010830 active site 522306010831 catalytic site [active] 522306010832 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 522306010833 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 522306010834 NodB motif; other site 522306010835 active site 522306010836 catalytic site [active] 522306010837 metal binding site [ion binding]; metal-binding site 522306010838 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 522306010839 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306010840 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 522306010841 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306010842 Walker A/P-loop; other site 522306010843 ATP binding site [chemical binding]; other site 522306010844 Q-loop/lid; other site 522306010845 ABC transporter signature motif; other site 522306010846 Walker B; other site 522306010847 D-loop; other site 522306010848 H-loop/switch region; other site 522306010849 ABC transporter; Region: ABC_tran_2; pfam12848 522306010850 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 522306010851 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 522306010852 PAS domain; Region: PAS_9; pfam13426 522306010853 putative active site [active] 522306010854 heme pocket [chemical binding]; other site 522306010855 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306010856 metal binding site [ion binding]; metal-binding site 522306010857 active site 522306010858 I-site; other site 522306010859 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 522306010860 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 522306010861 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 522306010862 active site 522306010863 phosphorylation site [posttranslational modification] 522306010864 intermolecular recognition site; other site 522306010865 dimerization interface [polypeptide binding]; other site 522306010866 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522306010867 DNA binding residues [nucleotide binding] 522306010868 dimerization interface [polypeptide binding]; other site 522306010869 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306010870 PAS fold; Region: PAS_4; pfam08448 522306010871 putative diguanylate cyclase; Provisional; Region: PRK09776 522306010872 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 522306010873 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 522306010874 Histidine kinase; Region: HisKA_3; pfam07730 522306010875 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 522306010876 ATP binding site [chemical binding]; other site 522306010877 Mg2+ binding site [ion binding]; other site 522306010878 G-X-G motif; other site 522306010879 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 522306010880 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306010881 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 522306010882 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 522306010883 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 522306010884 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 522306010885 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 522306010886 PUA domain; Region: PUA; cl00607 522306010887 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 522306010888 S-adenosylmethionine binding site [chemical binding]; other site 522306010889 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 522306010890 Cu(I) binding site [ion binding]; other site 522306010891 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 522306010892 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 522306010893 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306010894 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 522306010895 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 522306010896 ligand binding site [chemical binding]; other site 522306010897 flexible hinge region; other site 522306010898 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 522306010899 Ligand Binding Site [chemical binding]; other site 522306010900 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 522306010901 Phosphate transporter family; Region: PHO4; cl00396 522306010902 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 522306010903 Peptidase family M23; Region: Peptidase_M23; pfam01551 522306010904 ferric uptake regulator; Provisional; Region: fur; PRK09462 522306010905 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 522306010906 metal binding site 2 [ion binding]; metal-binding site 522306010907 putative DNA binding helix; other site 522306010908 metal binding site 1 [ion binding]; metal-binding site 522306010909 dimer interface [polypeptide binding]; other site 522306010910 structural Zn2+ binding site [ion binding]; other site 522306010911 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 522306010912 dihydrodipicolinate reductase; Provisional; Region: PRK00048 522306010913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306010914 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 522306010915 Winged helix-turn helix; Region: HTH_29; pfam13551 522306010916 Integrase core domain; Region: rve; cl01316 522306010917 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 522306010918 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 522306010919 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 522306010920 catalytic site [active] 522306010921 subunit interface [polypeptide binding]; other site 522306010922 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 522306010923 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 522306010924 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306010925 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 522306010926 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 522306010927 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306010928 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 522306010929 IMP binding site; other site 522306010930 dimer interface [polypeptide binding]; other site 522306010931 interdomain contacts; other site 522306010932 partial ornithine binding site; other site 522306010933 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 522306010934 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 522306010935 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 522306010936 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 522306010937 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 522306010938 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306010939 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 522306010940 FtsH Extracellular; Region: FtsH_ext; pfam06480 522306010941 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 522306010942 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 522306010943 Walker A motif; other site 522306010944 ATP binding site [chemical binding]; other site 522306010945 Walker B motif; other site 522306010946 arginine finger; other site 522306010947 Peptidase family M41; Region: Peptidase_M41; pfam01434 522306010948 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 522306010949 dihydropteroate synthase; Region: DHPS; TIGR01496 522306010950 substrate binding pocket [chemical binding]; other site 522306010951 dimer interface [polypeptide binding]; other site 522306010952 inhibitor binding site; inhibition site 522306010953 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 522306010954 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 522306010955 active site 522306010956 substrate binding site [chemical binding]; other site 522306010957 metal binding site [ion binding]; metal-binding site 522306010958 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 522306010959 Sodium:solute symporter family; Region: SSF; cl00456 522306010960 Sodium:solute symporter family; Region: SSF; cl00456 522306010961 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 522306010962 active site 522306010963 substrate binding site [chemical binding]; other site 522306010964 catalytic site [active] 522306010965 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 522306010966 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 522306010967 ligand binding site [chemical binding]; other site 522306010968 flexible hinge region; other site 522306010969 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 522306010970 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522306010971 metal binding triad; other site 522306010972 acetyl-CoA synthetase; Provisional; Region: PRK00174 522306010973 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 522306010974 AMP-binding enzyme; Region: AMP-binding; cl15778 522306010975 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306010976 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 522306010977 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 522306010978 Fumarase C-terminus; Region: Fumerase_C; cl00795 522306010979 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 522306010980 homotrimer interaction site [polypeptide binding]; other site 522306010981 putative active site [active] 522306010982 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 522306010983 HI0933-like protein; Region: HI0933_like; pfam03486 522306010984 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306010985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306010986 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 522306010987 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 522306010988 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 522306010989 G1 box; other site 522306010990 putative GEF interaction site [polypeptide binding]; other site 522306010991 GTP/Mg2+ binding site [chemical binding]; other site 522306010992 Switch I region; other site 522306010993 G2 box; other site 522306010994 G3 box; other site 522306010995 Switch II region; other site 522306010996 G4 box; other site 522306010997 G5 box; other site 522306010998 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 522306010999 Protein of unknown function, DUF480; Region: DUF480; cl01209 522306011000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522306011001 Integrase core domain; Region: rve; cl01316 522306011002 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522306011003 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 522306011004 Walker A motif; other site 522306011005 ATP binding site [chemical binding]; other site 522306011006 Walker B motif; other site 522306011007 Protein of unknown function, DUF480; Region: DUF480; cl01209 522306011008 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 522306011009 dimer interface [polypeptide binding]; other site 522306011010 ADP-ribose binding site [chemical binding]; other site 522306011011 active site 522306011012 nudix motif; other site 522306011013 metal binding site [ion binding]; metal-binding site 522306011014 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 522306011015 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 522306011016 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 522306011017 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 522306011018 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 522306011019 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 522306011020 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 522306011021 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 522306011022 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 522306011023 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 522306011024 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 522306011025 4Fe-4S binding domain; Region: Fer4; cl02805 522306011026 4Fe-4S binding domain; Region: Fer4; cl02805 522306011027 NADH dehydrogenase; Region: NADHdh; cl00469 522306011028 NADH dehydrogenase subunit G; Validated; Region: PRK09129 522306011029 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 522306011030 catalytic loop [active] 522306011031 iron binding site [ion binding]; other site 522306011032 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 522306011033 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 522306011034 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 522306011035 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 522306011036 SLBB domain; Region: SLBB; pfam10531 522306011037 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 522306011038 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 522306011039 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 522306011040 putative dimer interface [polypeptide binding]; other site 522306011041 [2Fe-2S] cluster binding site [ion binding]; other site 522306011042 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 522306011043 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 522306011044 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 522306011045 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 522306011046 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 522306011047 Preprotein translocase SecG subunit; Region: SecG; cl09123 522306011048 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 522306011049 active site 522306011050 metal binding site [ion binding]; metal-binding site 522306011051 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306011052 Phosphate transporter family; Region: PHO4; cl00396 522306011053 Phosphate transporter family; Region: PHO4; cl00396 522306011054 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 522306011055 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 522306011056 Phosphate transporter family; Region: PHO4; cl00396 522306011057 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 522306011058 ParA-like protein; Provisional; Region: PHA02518 522306011059 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 522306011060 P-loop; other site 522306011061 Magnesium ion binding site [ion binding]; other site 522306011062 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 522306011063 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 522306011064 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522306011065 DNA binding residues [nucleotide binding] 522306011066 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 522306011067 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 522306011068 putative acyl-acceptor binding pocket; other site 522306011069 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 522306011070 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 522306011071 GTP/Mg2+ binding site [chemical binding]; other site 522306011072 G4 box; other site 522306011073 G5 box; other site 522306011074 G1 box; other site 522306011075 Switch I region; other site 522306011076 G2 box; other site 522306011077 G3 box; other site 522306011078 Switch II region; other site 522306011079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306011080 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 522306011081 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522306011082 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 522306011083 active site 522306011084 phosphorylation site [posttranslational modification] 522306011085 intermolecular recognition site; other site 522306011086 dimerization interface [polypeptide binding]; other site 522306011087 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 522306011088 Walker A motif; other site 522306011089 ATP binding site [chemical binding]; other site 522306011090 Walker B motif; other site 522306011091 arginine finger; other site 522306011092 Helix-turn-helix domains; Region: HTH; cl00088 522306011093 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 522306011094 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 522306011095 dimer interface [polypeptide binding]; other site 522306011096 phosphorylation site [posttranslational modification] 522306011097 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 522306011098 ATP binding site [chemical binding]; other site 522306011099 Mg2+ binding site [ion binding]; other site 522306011100 G-X-G motif; other site 522306011101 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 522306011102 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 522306011103 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 522306011104 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 522306011105 FliG C-terminal domain; Region: FliG_C; pfam01706 522306011106 flagellar assembly protein H; Validated; Region: fliH; PRK05687 522306011107 Flagellar assembly protein FliH; Region: FliH; pfam02108 522306011108 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 522306011109 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 522306011110 Walker A motif/ATP binding site; other site 522306011111 Walker B motif; other site 522306011112 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 522306011113 Flagellar FliJ protein; Region: FliJ; pfam02050 522306011114 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 522306011115 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 522306011116 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 522306011117 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 522306011118 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 522306011119 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 522306011120 FliP family; Region: FliP; cl00593 522306011121 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 522306011122 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 522306011123 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 522306011124 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 522306011125 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 522306011126 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 522306011127 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 522306011128 Rod binding protein; Region: Rod-binding; cl01626 522306011129 flagellar rod assembly protein/muramidase FlgJ; Region: flagell_FlgJ; TIGR02541 522306011130 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 522306011131 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 522306011132 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 522306011133 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 522306011134 Flagellar L-ring protein; Region: FlgH; cl00905 522306011135 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 522306011136 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 522306011137 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 522306011138 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 522306011139 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 522306011140 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 522306011141 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 522306011142 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 522306011143 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 522306011144 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 522306011145 FlgD Ig-like domain; Region: FlgD_ig; cl15790 522306011146 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 522306011147 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 522306011148 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 522306011149 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 522306011150 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 522306011151 SAF domain; Region: SAF; cl00555 522306011152 SAF-like; Region: SAF_2; pfam13144 522306011153 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 522306011154 FlgN protein; Region: FlgN; cl09176 522306011155 flagellar motor protein MotD; Reviewed; Region: PRK09038 522306011156 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 522306011157 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306011158 ligand binding site [chemical binding]; other site 522306011159 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 522306011160 flagellar motor protein MotA; Validated; Region: PRK08124 522306011161 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 522306011162 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522306011163 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 522306011164 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 522306011165 DNA binding residues [nucleotide binding] 522306011166 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 522306011167 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306011168 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 522306011169 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 522306011170 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306011171 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 522306011172 FHIPEP family; Region: FHIPEP; pfam00771 522306011173 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 522306011174 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 522306011175 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 522306011176 putative binding surface; other site 522306011177 active site 522306011178 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 522306011179 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 522306011180 ATP binding site [chemical binding]; other site 522306011181 Mg2+ binding site [ion binding]; other site 522306011182 G-X-G motif; other site 522306011183 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 522306011184 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 522306011185 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 522306011186 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 522306011187 active site 522306011188 phosphorylation site [posttranslational modification] 522306011189 intermolecular recognition site; other site 522306011190 dimerization interface [polypeptide binding]; other site 522306011191 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 522306011192 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522306011193 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 522306011194 active site 522306011195 phosphorylation site [posttranslational modification] 522306011196 intermolecular recognition site; other site 522306011197 dimerization interface [polypeptide binding]; other site 522306011198 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 522306011199 Response regulator receiver domain; Region: Response_reg; pfam00072 522306011200 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 522306011201 active site 522306011202 phosphorylation site [posttranslational modification] 522306011203 intermolecular recognition site; other site 522306011204 dimerization interface [polypeptide binding]; other site 522306011205 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306011206 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522306011207 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522306011208 dimer interface [polypeptide binding]; other site 522306011209 putative CheW interface [polypeptide binding]; other site 522306011210 FliW protein; Region: FliW; cl00740 522306011211 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 522306011212 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 522306011213 two component system sensor kinase SsrA; Provisional; Region: PRK15347 522306011214 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306011215 metal binding site [ion binding]; metal-binding site 522306011216 active site 522306011217 I-site; other site 522306011218 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 522306011219 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 522306011220 active site 522306011221 HslU subunit interaction site [polypeptide binding]; other site 522306011222 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 522306011223 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 522306011224 Walker A motif; other site 522306011225 ATP binding site [chemical binding]; other site 522306011226 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306011227 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 522306011228 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 522306011229 Ligand Binding Site [chemical binding]; other site 522306011230 Integral membrane protein TerC family; Region: TerC; cl10468 522306011231 malate synthase A; Region: malate_syn_A; TIGR01344 522306011232 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 522306011233 active site 522306011234 transcriptional regulator; Provisional; Region: PRK10632 522306011235 Helix-turn-helix domains; Region: HTH; cl00088 522306011236 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 522306011237 putative effector binding pocket; other site 522306011238 dimerization interface [polypeptide binding]; other site 522306011239 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306011240 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 522306011241 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522306011242 Zn2+ binding site [ion binding]; other site 522306011243 Mg2+ binding site [ion binding]; other site 522306011244 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522306011245 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 522306011246 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 522306011247 tetramer interface [polypeptide binding]; other site 522306011248 active site 522306011249 Mg2+/Mn2+ binding site [ion binding]; other site 522306011250 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 522306011251 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 522306011252 Helix-turn-helix domains; Region: HTH; cl00088 522306011253 metal binding site 2 [ion binding]; metal-binding site 522306011254 putative DNA binding helix; other site 522306011255 metal binding site 1 [ion binding]; metal-binding site 522306011256 dimer interface [polypeptide binding]; other site 522306011257 structural Zn2+ binding site [ion binding]; other site 522306011258 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 522306011259 putative active site [active] 522306011260 Acylphosphatase; Region: Acylphosphatase; cl00551 522306011261 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 522306011262 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 522306011263 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 522306011264 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 522306011265 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 522306011266 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 522306011267 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 522306011268 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 522306011269 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 522306011270 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 522306011271 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 522306011272 Domain of unknown function (DUF955); Region: DUF955; cl01076 522306011273 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 522306011274 non-specific DNA binding site [nucleotide binding]; other site 522306011275 salt bridge; other site 522306011276 sequence-specific DNA binding site [nucleotide binding]; other site 522306011277 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 522306011278 active site 522306011279 NTP binding site [chemical binding]; other site 522306011280 metal binding triad [ion binding]; metal-binding site 522306011281 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 522306011282 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 522306011283 Walker A motif; other site 522306011284 ATP binding site [chemical binding]; other site 522306011285 Walker B motif; other site 522306011286 arginine finger; other site 522306011287 Rhodopirellula transposase DDE domain; Region: DDE_Tnp_ISAZ013; pfam07592 522306011288 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 522306011289 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 522306011290 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 522306011291 YcxB-like protein; Region: YcxB; pfam14317 522306011292 Peptidase C13 family; Region: Peptidase_C13; cl02159 522306011293 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 522306011294 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 522306011295 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 522306011296 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 522306011297 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 522306011298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 522306011299 PII uridylyl-transferase; Provisional; Region: PRK03059 522306011300 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522306011301 metal binding triad; other site 522306011302 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 522306011303 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306011304 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 522306011305 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 522306011306 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 522306011307 Citrate synthase; Region: Citrate_synt; pfam00285 522306011308 oxalacetate binding site [chemical binding]; other site 522306011309 citrylCoA binding site [chemical binding]; other site 522306011310 coenzyme A binding site [chemical binding]; other site 522306011311 catalytic triad [active] 522306011312 HDOD domain; Region: HDOD; pfam08668 522306011313 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 522306011314 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 522306011315 RNA binding surface [nucleotide binding]; other site 522306011316 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 522306011317 active site 522306011318 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 522306011319 Protein of unknown function (DUF342); Region: DUF342; pfam03961 522306011320 cyanophycin synthetase; Provisional; Region: PRK14016 522306011321 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306011322 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522306011323 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 522306011324 cyanophycin synthetase; Provisional; Region: PRK14016 522306011325 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306011326 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522306011327 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 522306011328 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 522306011329 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 522306011330 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306011331 Walker A/P-loop; other site 522306011332 ATP binding site [chemical binding]; other site 522306011333 Q-loop/lid; other site 522306011334 ABC transporter signature motif; other site 522306011335 Walker B; other site 522306011336 D-loop; other site 522306011337 H-loop/switch region; other site 522306011338 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306011339 cyclase homology domain; Region: CHD; cd07302 522306011340 nucleotidyl binding site; other site 522306011341 metal binding site [ion binding]; metal-binding site 522306011342 dimer interface [polypeptide binding]; other site 522306011343 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 522306011344 phosphopeptide binding site; other site 522306011345 DEAD-like helicases superfamily; Region: DEXDc; smart00487 522306011346 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 522306011347 ATP binding site [chemical binding]; other site 522306011348 putative Mg++ binding site [ion binding]; other site 522306011349 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 522306011350 nucleotide binding region [chemical binding]; other site 522306011351 ATP-binding site [chemical binding]; other site 522306011352 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 522306011353 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 522306011354 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 522306011355 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 522306011356 RNA binding site [nucleotide binding]; other site 522306011357 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 522306011358 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 522306011359 motif II; other site 522306011360 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 522306011361 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 522306011362 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 522306011363 putative active site [active] 522306011364 putative substrate binding site [chemical binding]; other site 522306011365 putative cosubstrate binding site; other site 522306011366 catalytic site [active] 522306011367 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 522306011368 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 522306011369 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 522306011370 ABC transporter; Region: ABC_tran_2; pfam12848 522306011371 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 522306011372 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 522306011373 octamerization interface [polypeptide binding]; other site 522306011374 diferric-oxygen binding site [ion binding]; other site 522306011375 Cache domain; Region: Cache_1; pfam02743 522306011376 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 522306011377 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 522306011378 dimerization interface [polypeptide binding]; other site 522306011379 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306011380 metal binding site [ion binding]; metal-binding site 522306011381 active site 522306011382 I-site; other site 522306011383 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 522306011384 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 522306011385 Walker A/P-loop; other site 522306011386 ATP binding site [chemical binding]; other site 522306011387 Q-loop/lid; other site 522306011388 ABC transporter signature motif; other site 522306011389 Walker B; other site 522306011390 D-loop; other site 522306011391 H-loop/switch region; other site 522306011392 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 522306011393 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 522306011394 dimer interface [polypeptide binding]; other site 522306011395 putative PBP binding regions; other site 522306011396 ABC-ATPase subunit interface; other site 522306011397 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 522306011398 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 522306011399 N-terminal plug; other site 522306011400 ligand-binding site [chemical binding]; other site 522306011401 Protein of unknown function (DUF972); Region: DUF972; pfam06156 522306011402 Cell division protein ZapA; Region: ZapA; cl01146 522306011403 NapD protein; Region: NapD; cl01163 522306011404 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 522306011405 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 522306011406 [4Fe-4S] binding site [ion binding]; other site 522306011407 molybdopterin cofactor binding site; other site 522306011408 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 522306011409 molybdopterin cofactor binding site; other site 522306011410 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 522306011411 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 522306011412 4Fe-4S binding domain; Region: Fer4_5; pfam12801 522306011413 4Fe-4S binding domain; Region: Fer4_5; pfam12801 522306011414 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 522306011415 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 522306011416 Phosphopantetheine attachment site; Region: PP-binding; cl09936 522306011417 acyl-CoA synthetase; Validated; Region: PRK09192 522306011418 AMP-binding enzyme; Region: AMP-binding; cl15778 522306011419 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 522306011420 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 522306011421 putative acyl-acceptor binding pocket; other site 522306011422 ferredoxin-type protein; Provisional; Region: PRK10194 522306011423 4Fe-4S binding domain; Region: Fer4; cl02805 522306011424 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 522306011425 FMN binding site [chemical binding]; other site 522306011426 dimer interface [polypeptide binding]; other site 522306011427 ribonuclease R; Region: RNase_R; TIGR02063 522306011428 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 522306011429 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 522306011430 RNB domain; Region: RNB; pfam00773 522306011431 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 522306011432 RNA binding site [nucleotide binding]; other site 522306011433 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 522306011434 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 522306011435 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 522306011436 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 522306011437 carboxyltransferase (CT) interaction site; other site 522306011438 biotinylation site [posttranslational modification]; other site 522306011439 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 522306011440 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 522306011441 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 522306011442 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 522306011443 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 522306011444 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 522306011445 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 522306011446 NAD(P) binding site [chemical binding]; other site 522306011447 homotetramer interface [polypeptide binding]; other site 522306011448 homodimer interface [polypeptide binding]; other site 522306011449 active site 522306011450 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 522306011451 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 522306011452 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 522306011453 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 522306011454 RNA binding surface [nucleotide binding]; other site 522306011455 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 522306011456 active site 522306011457 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 522306011458 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 522306011459 Catalytic domain of Protein Kinases; Region: PKc; cd00180 522306011460 active site 522306011461 ATP binding site [chemical binding]; other site 522306011462 substrate binding site [chemical binding]; other site 522306011463 activation loop (A-loop); other site 522306011464 HDOD domain; Region: HDOD; pfam08668 522306011465 RmuC family; Region: RmuC; pfam02646 522306011466 AsmA family; Region: AsmA; pfam05170 522306011467 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 522306011468 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 522306011469 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 522306011470 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 522306011471 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 522306011472 ligand binding site [chemical binding]; other site 522306011473 Response regulator receiver domain; Region: Response_reg; pfam00072 522306011474 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 522306011475 active site 522306011476 phosphorylation site [posttranslational modification] 522306011477 intermolecular recognition site; other site 522306011478 dimerization interface [polypeptide binding]; other site 522306011479 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306011480 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 522306011481 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 522306011482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306011483 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 522306011484 RNA/DNA hybrid binding site [nucleotide binding]; other site 522306011485 active site 522306011486 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 522306011487 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 522306011488 active site 522306011489 substrate binding site [chemical binding]; other site 522306011490 catalytic site [active] 522306011491 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 522306011492 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 522306011493 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 522306011494 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 522306011495 SlyX; Region: SlyX; cl01090 522306011496 Predicted membrane protein [Function unknown]; Region: COG4682 522306011497 yiaA/B two helix domain; Region: YiaAB; cl01759 522306011498 yiaA/B two helix domain; Region: YiaAB; cl01759 522306011499 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 522306011500 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 522306011501 substrate binding pocket [chemical binding]; other site 522306011502 membrane-bound complex binding site; other site 522306011503 hinge residues; other site 522306011504 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 522306011505 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 522306011506 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 522306011507 Peptidase M15; Region: Peptidase_M15_3; cl01194 522306011508 Helix-turn-helix domains; Region: HTH; cl00088 522306011509 Winged helix-turn helix; Region: HTH_29; pfam13551 522306011510 Integrase core domain; Region: rve; cl01316 522306011511 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 522306011512 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 522306011513 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 522306011514 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 522306011515 PAS domain; Region: PAS_9; pfam13426 522306011516 putative active site [active] 522306011517 heme pocket [chemical binding]; other site 522306011518 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306011519 metal binding site [ion binding]; metal-binding site 522306011520 active site 522306011521 I-site; other site 522306011522 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 522306011523 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 522306011524 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 522306011525 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 522306011526 short chain dehydrogenase; Provisional; Region: PRK07825 522306011527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306011528 NAD(P) binding site [chemical binding]; other site 522306011529 active site 522306011530 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 522306011531 MFS/sugar transport protein; Region: MFS_2; pfam13347 522306011532 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 522306011533 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 522306011534 S-adenosylmethionine binding site [chemical binding]; other site 522306011535 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 522306011536 Uncharacterized conserved protein [Function unknown]; Region: COG3496 522306011537 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 522306011538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306011539 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 522306011540 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 522306011541 catalytic residues [active] 522306011542 dimer interface [polypeptide binding]; other site 522306011543 NosL; Region: NosL; cl01769 522306011544 NosL; Region: NosL; cl01769 522306011545 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 522306011546 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 522306011547 Gram-negative bacterial tonB protein; Region: TonB; cl10048 522306011548 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 522306011549 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 522306011550 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 522306011551 N-terminal plug; other site 522306011552 ligand-binding site [chemical binding]; other site 522306011553 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 522306011554 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 522306011555 Putative transposase; Region: Y2_Tnp; pfam04986 522306011556 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 522306011557 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 522306011558 DNA binding site [nucleotide binding] 522306011559 Int/Topo IB signature motif; other site 522306011560 active site 522306011561 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 522306011562 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 522306011563 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522306011564 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 522306011565 metal-binding site [ion binding] 522306011566 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306011567 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306011568 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 522306011569 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 522306011570 catalytic residues [active] 522306011571 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522306011572 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 522306011573 Walker A/P-loop; other site 522306011574 ATP binding site [chemical binding]; other site 522306011575 Q-loop/lid; other site 522306011576 ABC transporter signature motif; other site 522306011577 Walker B; other site 522306011578 D-loop; other site 522306011579 H-loop/switch region; other site 522306011580 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 522306011581 FtsX-like permease family; Region: FtsX; cl15850 522306011582 nickel responsive regulator; Provisional; Region: PRK02967 522306011583 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 522306011584 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 522306011585 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 522306011586 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 522306011587 N-terminal plug; other site 522306011588 ligand-binding site [chemical binding]; other site 522306011589 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 522306011590 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522306011591 Walker A/P-loop; other site 522306011592 ATP binding site [chemical binding]; other site 522306011593 Q-loop/lid; other site 522306011594 ABC transporter signature motif; other site 522306011595 Walker B; other site 522306011596 D-loop; other site 522306011597 H-loop/switch region; other site 522306011598 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; cl00462 522306011599 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 522306011600 intersubunit interface [polypeptide binding]; other site 522306011601 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 522306011602 Methyltransferase domain; Region: Methyltransf_31; pfam13847 522306011603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306011604 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 522306011605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 522306011606 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 522306011607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 522306011608 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 522306011609 Predicted secreted protein [Function unknown]; Region: COG5445 522306011610 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 522306011611 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 522306011612 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 522306011613 MG2 domain; Region: A2M_N; pfam01835 522306011614 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 522306011615 Alpha-2-macroglobulin family; Region: A2M; pfam00207 522306011616 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 522306011617 Protein of unknown function (DUF1175); Region: DUF1175; cl14898 522306011618 Uncharacterized protein conserved in bacteria (DUF2138); Region: DUF2138; cl01916 522306011619 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 522306011620 DNA binding residues [nucleotide binding] 522306011621 B12 binding domain; Region: B12-binding_2; cl03653 522306011622 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 522306011623 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306011624 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 522306011625 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 522306011626 active site 522306011627 HIGH motif; other site 522306011628 dimer interface [polypeptide binding]; other site 522306011629 KMSKS motif; other site 522306011630 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; cl09940 522306011631 Transposase [DNA replication, recombination, and repair]; Region: COG5421 522306011632 ferredoxin; Validated; Region: PRK07118 522306011633 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 522306011634 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 522306011635 active site 522306011636 (T/H)XGH motif; other site 522306011637 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 522306011638 S-adenosylmethionine binding site [chemical binding]; other site 522306011639 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 522306011640 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 522306011641 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 522306011642 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 522306011643 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 522306011644 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 522306011645 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 522306011646 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 522306011647 P loop; other site 522306011648 GTP binding site [chemical binding]; other site 522306011649 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 522306011650 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306011651 Walker A/P-loop; other site 522306011652 ATP binding site [chemical binding]; other site 522306011653 Q-loop/lid; other site 522306011654 ABC transporter signature motif; other site 522306011655 Walker B; other site 522306011656 D-loop; other site 522306011657 H-loop/switch region; other site 522306011658 FtsX-like permease family; Region: FtsX; cl15850 522306011659 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 522306011660 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 522306011661 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 522306011662 tetramer (dimer of dimers) interface [polypeptide binding]; other site 522306011663 active site 522306011664 dimer interface [polypeptide binding]; other site 522306011665 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 522306011666 N-acetylglutamate synthase; Validated; Region: PRK05279 522306011667 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 522306011668 putative feedback inhibition sensing region; other site 522306011669 putative nucleotide binding site [chemical binding]; other site 522306011670 putative substrate binding site [chemical binding]; other site 522306011671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522306011672 Coenzyme A binding pocket [chemical binding]; other site 522306011673 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 522306011674 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 522306011675 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306011676 active site 522306011677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 522306011678 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 522306011679 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 522306011680 putative catalytic residue [active] 522306011681 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 522306011682 active site 522306011683 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 522306011684 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 522306011685 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306011686 catalytic residue [active] 522306011687 antiporter inner membrane protein; Provisional; Region: PRK11670 522306011688 Domain of unknown function DUF59; Region: DUF59; cl00941 522306011689 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 522306011690 Walker A motif; other site 522306011691 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 522306011692 trimer interface [polypeptide binding]; other site 522306011693 active site 522306011694 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 522306011695 arginine decarboxylase; Provisional; Region: PRK15029 522306011696 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 522306011697 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306011698 catalytic residue [active] 522306011699 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 522306011700 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 522306011701 Domain of unknown function DUF21; Region: DUF21; pfam01595 522306011702 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 522306011703 Transporter associated domain; Region: CorC_HlyC; cl08393 522306011704 ATP phosphoribosyltransferase; Region: HisG; cl15266 522306011705 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 522306011706 histidinol dehydrogenase; Region: hisD; TIGR00069 522306011707 NAD binding site [chemical binding]; other site 522306011708 dimerization interface [polypeptide binding]; other site 522306011709 product binding site; other site 522306011710 substrate binding site [chemical binding]; other site 522306011711 zinc binding site [ion binding]; other site 522306011712 catalytic residues [active] 522306011713 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 522306011714 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 522306011715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306011716 homodimer interface [polypeptide binding]; other site 522306011717 catalytic residue [active] 522306011718 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 522306011719 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 522306011720 putative active site pocket [active] 522306011721 4-fold oligomerization interface [polypeptide binding]; other site 522306011722 metal binding residues [ion binding]; metal-binding site 522306011723 3-fold/trimer interface [polypeptide binding]; other site 522306011724 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 522306011725 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 522306011726 putative active site [active] 522306011727 oxyanion strand; other site 522306011728 catalytic triad [active] 522306011729 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 522306011730 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 522306011731 catalytic residues [active] 522306011732 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 522306011733 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 522306011734 substrate binding site [chemical binding]; other site 522306011735 glutamase interaction surface [polypeptide binding]; other site 522306011736 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 522306011737 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 522306011738 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 522306011739 nucleotide binding site/active site [active] 522306011740 HIT family signature motif; other site 522306011741 catalytic residue [active] 522306011742 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 522306011743 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 522306011744 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 522306011745 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 522306011746 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 522306011747 putative active site [active] 522306011748 putative dimer interface [polypeptide binding]; other site 522306011749 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 522306011750 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 522306011751 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 522306011752 protein binding site [polypeptide binding]; other site 522306011753 Uncharacterized conserved protein [Function unknown]; Region: COG0327 522306011754 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 522306011755 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 522306011756 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 522306011757 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 522306011758 aromatic acid decarboxylase; Validated; Region: PRK05920 522306011759 Flavoprotein; Region: Flavoprotein; cl08021 522306011760 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 522306011761 putative substrate translocation pore; other site 522306011762 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306011763 PAS domain; Region: PAS_9; pfam13426 522306011764 putative active site [active] 522306011765 heme pocket [chemical binding]; other site 522306011766 PAS fold; Region: PAS; pfam00989 522306011767 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 522306011768 putative active site [active] 522306011769 heme pocket [chemical binding]; other site 522306011770 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 522306011771 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 522306011772 putative active site [active] 522306011773 heme pocket [chemical binding]; other site 522306011774 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 522306011775 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 522306011776 putative active site [active] 522306011777 heme pocket [chemical binding]; other site 522306011778 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306011779 metal binding site [ion binding]; metal-binding site 522306011780 active site 522306011781 I-site; other site 522306011782 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 522306011783 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 522306011784 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 522306011785 minor groove reading motif; other site 522306011786 helix-hairpin-helix signature motif; other site 522306011787 substrate binding pocket [chemical binding]; other site 522306011788 active site 522306011789 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 522306011790 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 522306011791 DNA binding and oxoG recognition site [nucleotide binding] 522306011792 Flavin Reductases; Region: FlaRed; cl00801 522306011793 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 522306011794 DNA-binding site [nucleotide binding]; DNA binding site 522306011795 RNA-binding motif; other site 522306011796 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 522306011797 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 522306011798 Clp amino terminal domain; Region: Clp_N; pfam02861 522306011799 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 522306011800 Walker A motif; other site 522306011801 ATP binding site [chemical binding]; other site 522306011802 Walker B motif; other site 522306011803 arginine finger; other site 522306011804 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 522306011805 Walker A motif; other site 522306011806 ATP binding site [chemical binding]; other site 522306011807 Walker B motif; other site 522306011808 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 522306011809 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 522306011810 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 522306011811 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 522306011812 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 522306011813 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 522306011814 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306011815 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306011816 Mechanosensitive ion channel; Region: MS_channel; pfam00924 522306011817 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 522306011818 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 522306011819 Predicted amidohydrolase [General function prediction only]; Region: COG0388 522306011820 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 522306011821 putative active site [active] 522306011822 catalytic triad [active] 522306011823 dimer interface [polypeptide binding]; other site 522306011824 TIGR02099 family protein; Region: TIGR02099 522306011825 AsmA-like C-terminal region; Region: AsmA_2; cl15864 522306011826 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 522306011827 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522306011828 metal binding triad; other site 522306011829 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 522306011830 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522306011831 metal binding triad; other site 522306011832 Uncharacterized conserved protein [Function unknown]; Region: COG2308 522306011833 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 522306011834 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 522306011835 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 522306011836 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 522306011837 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 522306011838 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 522306011839 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 522306011840 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522306011841 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 522306011842 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 522306011843 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 522306011844 Phosphate-starvation-inducible E; Region: PsiE; cl01264 522306011845 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 522306011846 Two component regulator propeller; Region: Reg_prop; pfam07494 522306011847 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 522306011848 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306011849 metal binding site [ion binding]; metal-binding site 522306011850 active site 522306011851 I-site; other site 522306011852 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 522306011853 Nitronate monooxygenase; Region: NMO; pfam03060 522306011854 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 522306011855 FMN binding site [chemical binding]; other site 522306011856 substrate binding site [chemical binding]; other site 522306011857 putative catalytic residue [active] 522306011858 DNA ligase; Provisional; Region: PRK09125 522306011859 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 522306011860 DNA binding site [nucleotide binding] 522306011861 active site 522306011862 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 522306011863 DNA binding site [nucleotide binding] 522306011864 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 522306011865 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 522306011866 putative ligand binding site [chemical binding]; other site 522306011867 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; cl00462 522306011868 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 522306011869 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 522306011870 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 522306011871 Walker A/P-loop; other site 522306011872 ATP binding site [chemical binding]; other site 522306011873 Q-loop/lid; other site 522306011874 ABC transporter signature motif; other site 522306011875 Walker B; other site 522306011876 D-loop; other site 522306011877 H-loop/switch region; other site 522306011878 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522306011879 FtsX-like permease family; Region: FtsX; cl15850 522306011880 Helix-turn-helix domains; Region: HTH; cl00088 522306011881 Integrase core domain; Region: rve; cl01316 522306011882 Integrase core domain; Region: rve_3; cl15866 522306011883 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 522306011884 AAA domain; Region: AAA_22; pfam13401 522306011885 Walker A motif; other site 522306011886 ATP binding site [chemical binding]; other site 522306011887 Walker B motif; other site 522306011888 arginine finger; other site 522306011889 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 522306011890 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 522306011891 Sulfatase; Region: Sulfatase; cl10460 522306011892 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_3; cd09321 522306011893 gating phenylalanine in ion channel; other site 522306011894 Cation efflux family; Region: Cation_efflux; cl00316 522306011895 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 522306011896 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522306011897 Coenzyme A binding pocket [chemical binding]; other site 522306011898 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 522306011899 dimerization interface [polypeptide binding]; other site 522306011900 putative tRNAtyr binding site [nucleotide binding]; other site 522306011901 putative active site [active] 522306011902 aspartate kinase; Reviewed; Region: PRK06635 522306011903 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 522306011904 putative nucleotide binding site [chemical binding]; other site 522306011905 putative catalytic residues [active] 522306011906 putative Mg ion binding site [ion binding]; other site 522306011907 putative aspartate binding site [chemical binding]; other site 522306011908 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 522306011909 putative allosteric regulatory site; other site 522306011910 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 522306011911 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 522306011912 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 522306011913 active site 522306011914 FMN binding site [chemical binding]; other site 522306011915 2,4-decadienoyl-CoA binding site; other site 522306011916 catalytic residue [active] 522306011917 4Fe-4S cluster binding site [ion binding]; other site 522306011918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306011919 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 522306011920 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 522306011921 active site residue [active] 522306011922 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 522306011923 active site residue [active] 522306011924 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 522306011925 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 522306011926 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 522306011927 substrate binding pocket [chemical binding]; other site 522306011928 chain length determination region; other site 522306011929 substrate-Mg2+ binding site; other site 522306011930 catalytic residues [active] 522306011931 aspartate-rich region 1; other site 522306011932 active site lid residues [active] 522306011933 aspartate-rich region 2; other site 522306011934 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 522306011935 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 522306011936 TPP-binding site; other site 522306011937 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 522306011938 PYR/PP interface [polypeptide binding]; other site 522306011939 dimer interface [polypeptide binding]; other site 522306011940 TPP binding site [chemical binding]; other site 522306011941 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 522306011942 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 522306011943 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 522306011944 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 522306011945 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 522306011946 RimM N-terminal domain; Region: RimM; pfam01782 522306011947 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 522306011948 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 522306011949 Integrase core domain; Region: rve; cl01316 522306011950 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 522306011951 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 522306011952 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 522306011953 2-isopropylmalate synthase; Validated; Region: PRK00915 522306011954 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 522306011955 active site 522306011956 catalytic residues [active] 522306011957 metal binding site [ion binding]; metal-binding site 522306011958 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 522306011959 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 522306011960 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 522306011961 ketol-acid reductoisomerase; Provisional; Region: PRK05479 522306011962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306011963 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 522306011964 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 522306011965 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 522306011966 putative valine binding site [chemical binding]; other site 522306011967 dimer interface [polypeptide binding]; other site 522306011968 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 522306011969 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 522306011970 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 522306011971 PYR/PP interface [polypeptide binding]; other site 522306011972 dimer interface [polypeptide binding]; other site 522306011973 TPP binding site [chemical binding]; other site 522306011974 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 522306011975 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 522306011976 TPP-binding site [chemical binding]; other site 522306011977 dimer interface [polypeptide binding]; other site 522306011978 RNA polymerase factor sigma-70; Validated; Region: PRK09047 522306011979 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522306011980 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 522306011981 DNA binding residues [nucleotide binding] 522306011982 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 522306011983 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 522306011984 RDD family; Region: RDD; cl00746 522306011985 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 522306011986 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 522306011987 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 522306011988 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 522306011989 multifunctional aminopeptidase A; Provisional; Region: PRK00913 522306011990 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 522306011991 interface (dimer of trimers) [polypeptide binding]; other site 522306011992 Substrate-binding/catalytic site; other site 522306011993 Zn-binding sites [ion binding]; other site 522306011994 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 522306011995 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 522306011996 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 522306011997 HIGH motif; other site 522306011998 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 522306011999 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 522306012000 active site 522306012001 KMSKS motif; other site 522306012002 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 522306012003 tRNA binding surface [nucleotide binding]; other site 522306012004 anticodon binding site; other site 522306012005 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 522306012006 chorismate binding enzyme; Region: Chorismate_bind; cl10555 522306012007 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 522306012008 homodimer interface [polypeptide binding]; other site 522306012009 substrate-cofactor binding pocket; other site 522306012010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522306012011 catalytic residue [active] 522306012012 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 522306012013 CPxP motif; other site 522306012014 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 522306012015 Peptidase family M48; Region: Peptidase_M48; cl12018 522306012016 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 522306012017 trimer interface [polypeptide binding]; other site 522306012018 dimer interface [polypeptide binding]; other site 522306012019 putative active site [active] 522306012020 H-NS histone family; Region: Histone_HNS; pfam00816 522306012021 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 522306012022 UDP-glucose 4-epimerase; Region: PLN02240 522306012023 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 522306012024 NAD binding site [chemical binding]; other site 522306012025 homodimer interface [polypeptide binding]; other site 522306012026 active site 522306012027 substrate binding site [chemical binding]; other site 522306012028 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 522306012029 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 522306012030 active site 522306012031 metal binding site [ion binding]; metal-binding site 522306012032 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 522306012033 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 522306012034 substrate binding site [chemical binding]; other site 522306012035 ATP binding site [chemical binding]; other site 522306012036 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 522306012037 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 522306012038 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 522306012039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306012040 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 522306012041 S-adenosylmethionine binding site [chemical binding]; other site 522306012042 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 522306012043 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 522306012044 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306012045 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 522306012046 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 522306012047 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 522306012048 carboxyltransferase (CT) interaction site; other site 522306012049 biotinylation site [posttranslational modification]; other site 522306012050 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 522306012051 catalytic residues [active] 522306012052 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 522306012053 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 522306012054 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522306012055 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 522306012056 UbiA prenyltransferase family; Region: UbiA; cl00337 522306012057 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 522306012058 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 522306012059 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 522306012060 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 522306012061 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 522306012062 Subunit III/VIIa interface [polypeptide binding]; other site 522306012063 Phospholipid binding site [chemical binding]; other site 522306012064 Subunit I/III interface [polypeptide binding]; other site 522306012065 Subunit III/VIb interface [polypeptide binding]; other site 522306012066 Subunit III/VIa interface; other site 522306012067 Subunit III/Vb interface [polypeptide binding]; other site 522306012068 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 522306012069 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 522306012070 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 522306012071 Subunit I/III interface [polypeptide binding]; other site 522306012072 D-pathway; other site 522306012073 Subunit I/VIIc interface [polypeptide binding]; other site 522306012074 Subunit I/IV interface [polypeptide binding]; other site 522306012075 Subunit I/II interface [polypeptide binding]; other site 522306012076 Low-spin heme (heme a) binding site [chemical binding]; other site 522306012077 Subunit I/VIIa interface [polypeptide binding]; other site 522306012078 Subunit I/VIa interface [polypeptide binding]; other site 522306012079 Dimer interface; other site 522306012080 Putative water exit pathway; other site 522306012081 Binuclear center (heme a3/CuB) [ion binding]; other site 522306012082 K-pathway; other site 522306012083 Subunit I/Vb interface [polypeptide binding]; other site 522306012084 Putative proton exit pathway; other site 522306012085 Subunit I/VIb interface; other site 522306012086 Subunit I/VIc interface [polypeptide binding]; other site 522306012087 Electron transfer pathway; other site 522306012088 Subunit I/VIIIb interface [polypeptide binding]; other site 522306012089 Subunit I/VIIb interface [polypeptide binding]; other site 522306012090 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 522306012091 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 522306012092 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 522306012093 Cytochrome c; Region: Cytochrom_C; cl11414 522306012094 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 522306012095 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 522306012096 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 522306012097 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522306012098 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 522306012099 DNA binding residues [nucleotide binding] 522306012100 Protein of unknown function (DUF692); Region: DUF692; cl01263 522306012101 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 522306012102 selenobiotic family peptide radical SAM maturase; Region: rSAM_for_selen; TIGR04082 522306012103 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 522306012104 nudix motif; other site 522306012105 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 522306012106 putative RNAase interaction site [polypeptide binding]; other site 522306012107 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 522306012108 active site 522306012109 barstar interaction site; other site 522306012110 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 522306012111 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 522306012112 dimer interface [polypeptide binding]; other site 522306012113 anticodon binding site; other site 522306012114 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 522306012115 homodimer interface [polypeptide binding]; other site 522306012116 motif 1; other site 522306012117 active site 522306012118 motif 2; other site 522306012119 GAD domain; Region: GAD; pfam02938 522306012120 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 522306012121 motif 3; other site 522306012122 Protein of unknown function (DUF502); Region: DUF502; cl01107 522306012123 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 522306012124 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 522306012125 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 522306012126 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 522306012127 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 522306012128 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 522306012129 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 522306012130 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 522306012131 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 522306012132 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 522306012133 Walker A motif; other site 522306012134 ATP binding site [chemical binding]; other site 522306012135 Walker B motif; other site 522306012136 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 522306012137 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 522306012138 DNA binding site [nucleotide binding] 522306012139 Int/Topo IB signature motif; other site 522306012140 active site 522306012141 GAF domain; Region: GAF; cl15785 522306012142 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 522306012143 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 522306012144 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 522306012145 putative acetyltransferase; Provisional; Region: PRK03624 522306012146 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522306012147 Coenzyme A binding pocket [chemical binding]; other site 522306012148 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 522306012149 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 522306012150 glutaminase active site [active] 522306012151 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 522306012152 dimer interface [polypeptide binding]; other site 522306012153 active site 522306012154 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 522306012155 dimer interface [polypeptide binding]; other site 522306012156 active site 522306012157 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 522306012158 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 522306012159 Substrate binding site; other site 522306012160 Mg++ binding site; other site 522306012161 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 522306012162 active site 522306012163 substrate binding site [chemical binding]; other site 522306012164 CoA binding site [chemical binding]; other site 522306012165 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 522306012166 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 522306012167 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 522306012168 active site 522306012169 dimer interface [polypeptide binding]; other site 522306012170 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 522306012171 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 522306012172 active site 522306012173 FMN binding site [chemical binding]; other site 522306012174 substrate binding site [chemical binding]; other site 522306012175 3Fe-4S cluster binding site [ion binding]; other site 522306012176 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 522306012177 domain interface; other site 522306012178 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 522306012179 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 522306012180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306012181 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 522306012182 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 522306012183 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 522306012184 FOG: CBS domain [General function prediction only]; Region: COG0517 522306012185 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 522306012186 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 522306012187 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 522306012188 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 522306012189 active site 522306012190 dimer interface [polypeptide binding]; other site 522306012191 metal binding site [ion binding]; metal-binding site 522306012192 shikimate kinase; Reviewed; Region: aroK; PRK00131 522306012193 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 522306012194 ADP binding site [chemical binding]; other site 522306012195 magnesium binding site [ion binding]; other site 522306012196 putative shikimate binding site; other site 522306012197 AMIN domain; Region: AMIN; pfam11741 522306012198 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 522306012199 Secretin and TonB N terminus short domain; Region: STN; cl06624 522306012200 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 522306012201 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 522306012202 Pilus assembly protein, PilP; Region: PilP; cl01235 522306012203 Pilus assembly protein, PilO; Region: PilO; cl01234 522306012204 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 522306012205 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 522306012206 Cell division protein FtsA; Region: FtsA; cl11496 522306012207 Competence protein A; Region: Competence_A; pfam11104 522306012208 Cell division protein FtsA; Region: FtsA; cl11496 522306012209 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 522306012210 Transglycosylase; Region: Transgly; cl07896 522306012211 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 522306012212 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 522306012213 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 522306012214 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 522306012215 Walker A/P-loop; other site 522306012216 ATP binding site [chemical binding]; other site 522306012217 Q-loop/lid; other site 522306012218 ABC transporter signature motif; other site 522306012219 Walker B; other site 522306012220 D-loop; other site 522306012221 H-loop/switch region; other site 522306012222 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306012223 ATP binding site [chemical binding]; other site 522306012224 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306012225 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522306012226 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 522306012227 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 522306012228 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 522306012229 putative acyl-acceptor binding pocket; other site 522306012230 S-adenosylmethionine synthetase; Validated; Region: PRK05250 522306012231 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 522306012232 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 522306012233 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 522306012234 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 522306012235 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 522306012236 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522306012237 Zn2+ binding site [ion binding]; other site 522306012238 Mg2+ binding site [ion binding]; other site 522306012239 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 522306012240 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 522306012241 iron-sulfur cluster [ion binding]; other site 522306012242 [2Fe-2S] cluster binding site [ion binding]; other site 522306012243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 522306012244 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 522306012245 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 522306012246 Peptidase M15; Region: Peptidase_M15_3; cl01194 522306012247 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 522306012248 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 522306012249 EamA-like transporter family; Region: EamA; cl01037 522306012250 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 522306012251 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 522306012252 Walker A/P-loop; other site 522306012253 ATP binding site [chemical binding]; other site 522306012254 Q-loop/lid; other site 522306012255 ABC transporter signature motif; other site 522306012256 Walker B; other site 522306012257 D-loop; other site 522306012258 H-loop/switch region; other site 522306012259 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 522306012260 putative PBP binding loops; other site 522306012261 ABC-ATPase subunit interface; other site 522306012262 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 522306012263 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306012264 glycerate dehydrogenase; Provisional; Region: PRK06487 522306012265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306012266 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 522306012267 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 522306012268 Transcriptional regulator [Transcription]; Region: IclR; COG1414 522306012269 Helix-turn-helix domains; Region: HTH; cl00088 522306012270 Bacterial transcriptional regulator; Region: IclR; pfam01614 522306012271 comEA protein; Region: comE; TIGR01259 522306012272 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 522306012273 EamA-like transporter family; Region: EamA; cl01037 522306012274 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 522306012275 active site 522306012276 putative DNA-binding cleft [nucleotide binding]; other site 522306012277 dimer interface [polypeptide binding]; other site 522306012278 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 522306012279 RuvA N terminal domain; Region: RuvA_N; pfam01330 522306012280 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 522306012281 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 522306012282 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 522306012283 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 522306012284 Walker A motif; other site 522306012285 ATP binding site [chemical binding]; other site 522306012286 Walker B motif; other site 522306012287 arginine finger; other site 522306012288 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 522306012289 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 522306012290 active site 522306012291 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 522306012292 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 522306012293 Gram-negative bacterial tonB protein; Region: TonB; cl10048 522306012294 TolB amino-terminal domain; Region: TolB_N; cl00639 522306012295 translocation protein TolB; Provisional; Region: tolB; PRK02889 522306012296 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 522306012297 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 522306012298 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 522306012299 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 522306012300 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522306012301 ligand binding site [chemical binding]; other site 522306012302 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 522306012303 Tetratricopeptide repeat; Region: TPR_6; pfam13174 522306012304 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 522306012305 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 522306012306 FeS/SAM binding site; other site 522306012307 PilZ domain; Region: PilZ; cl01260 522306012308 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 522306012309 catalytic residues [active] 522306012310 Restriction endonuclease; Region: Mrr_cat; cl00516 522306012311 DNA topoisomerase III; Provisional; Region: PRK07726 522306012312 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 522306012313 S-adenosylmethionine binding site [chemical binding]; other site 522306012314 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 522306012315 PLD-like domain; Region: PLDc_2; pfam13091 522306012316 putative homodimer interface [polypeptide binding]; other site 522306012317 putative active site [active] 522306012318 catalytic site [active] 522306012319 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 522306012320 ATP binding site [chemical binding]; other site 522306012321 putative Mg++ binding site [ion binding]; other site 522306012322 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306012323 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 522306012324 Catalytic site [active] 522306012325 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 522306012326 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 522306012327 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; cl00083 522306012328 SprA-related family; Region: SprA-related; pfam12118 522306012329 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 bacteriocins; Region: Peptidase_C39_likeD; cd02421 522306012330 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 522306012331 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 522306012332 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 522306012333 Walker A/P-loop; other site 522306012334 ATP binding site [chemical binding]; other site 522306012335 Q-loop/lid; other site 522306012336 ABC transporter signature motif; other site 522306012337 Walker B; other site 522306012338 D-loop; other site 522306012339 H-loop/switch region; other site 522306012340 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 522306012341 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306012342 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522306012343 DNA binding residues [nucleotide binding] 522306012344 dimerization interface [polypeptide binding]; other site 522306012345 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 522306012346 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 522306012347 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 522306012348 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 522306012349 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 522306012350 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 522306012351 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 522306012352 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 522306012353 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 522306012354 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 522306012355 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 522306012356 VCBS repeat; Region: VCBS_repeat; TIGR01965 522306012357 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 522306012358 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 522306012359 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 522306012360 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522306012361 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522306012362 metal binding site [ion binding]; metal-binding site 522306012363 active site 522306012364 I-site; other site 522306012365 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 522306012366 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 522306012367 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 522306012368 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 522306012369 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 522306012370 substrate binding pocket [chemical binding]; other site 522306012371 membrane-bound complex binding site; other site 522306012372 hinge residues; other site 522306012373 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 522306012374 putative coenzyme Q binding site [chemical binding]; other site 522306012375 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 522306012376 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522306012377 active site 522306012378 HIGH motif; other site 522306012379 nucleotide binding site [chemical binding]; other site 522306012380 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522306012381 active site 522306012382 KMSKS motif; other site 522306012383 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 522306012384 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 522306012385 ArsC family; Region: ArsC; pfam03960 522306012386 catalytic residues [active] 522306012387 FOG: CBS domain [General function prediction only]; Region: COG0517 522306012388 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 522306012389 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522306012390 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 522306012391 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 522306012392 putative C-terminal domain interface [polypeptide binding]; other site 522306012393 putative GSH binding site (G-site) [chemical binding]; other site 522306012394 putative dimer interface [polypeptide binding]; other site 522306012395 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 522306012396 putative N-terminal domain interface [polypeptide binding]; other site 522306012397 putative dimer interface [polypeptide binding]; other site 522306012398 putative substrate binding pocket (H-site) [chemical binding]; other site 522306012399 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 522306012400 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 522306012401 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 522306012402 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 522306012403 FAD binding pocket [chemical binding]; other site 522306012404 FAD binding motif [chemical binding]; other site 522306012405 phosphate binding motif [ion binding]; other site 522306012406 beta-alpha-beta structure motif; other site 522306012407 NAD binding pocket [chemical binding]; other site 522306012408 Heme binding pocket [chemical binding]; other site 522306012409 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 522306012410 catalytic loop [active] 522306012411 iron binding site [ion binding]; other site 522306012412 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 522306012413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306012414 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 522306012415 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522306012416 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 522306012417 Walker B motif; other site 522306012418 arginine finger; other site 522306012419 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 522306012420 B12 binding site [chemical binding]; other site 522306012421 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 522306012422 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 522306012423 FeS/SAM binding site; other site 522306012424 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 522306012425 transcriptional regulator; Provisional; Region: PRK10632 522306012426 Helix-turn-helix domains; Region: HTH; cl00088 522306012427 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 522306012428 putative effector binding pocket; other site 522306012429 putative dimerization interface [polypeptide binding]; other site 522306012430 Helix-turn-helix domains; Region: HTH; cl00088 522306012431 HTH-like domain; Region: HTH_21; pfam13276 522306012432 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 522306012433 structural tetrad; other site 522306012434 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 522306012435 P-loop, Walker A motif; other site 522306012436 Base recognition motif; other site 522306012437 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 522306012438 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 522306012439 dihydroorotase; Reviewed; Region: PRK09236 522306012440 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 522306012441 active site 522306012442 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 522306012443 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 522306012444 trimer interface [polypeptide binding]; other site 522306012445 active site 522306012446 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 522306012447 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 522306012448 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 522306012449 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 522306012450 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 522306012451 active site 522306012452 dimer interface [polypeptide binding]; other site 522306012453 motif 1; other site 522306012454 motif 2; other site 522306012455 motif 3; other site 522306012456 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 522306012457 anticodon binding site; other site 522306012458 Haemolytic domain; Region: Haemolytic; cl00506 522306012459 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 522306012460 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 522306012461 active site 522306012462 HIGH motif; other site 522306012463 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 522306012464 KMSKS motif; other site 522306012465 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 522306012466 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 522306012467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306012468 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 522306012469 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 522306012470 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 522306012471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306012472 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 522306012473 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 522306012474 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 522306012475 metal binding site 2 [ion binding]; metal-binding site 522306012476 putative DNA binding helix; other site 522306012477 metal binding site 1 [ion binding]; metal-binding site 522306012478 dimer interface [polypeptide binding]; other site 522306012479 structural Zn2+ binding site [ion binding]; other site 522306012480 PrkA family serine protein kinase; Provisional; Region: PRK15455 522306012481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306012482 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 522306012483 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 522306012484 AAA domain; Region: AAA_22; pfam13401 522306012485 Walker A motif; other site 522306012486 ATP binding site [chemical binding]; other site 522306012487 Walker B motif; other site 522306012488 arginine finger; other site 522306012489 Winged helix-turn helix; Region: HTH_29; pfam13551 522306012490 Helix-turn-helix domains; Region: HTH; cl00088 522306012491 Helix-turn-helix domains; Region: HTH; cl00088 522306012492 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 522306012493 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 522306012494 catalytic residues [active] 522306012495 catalytic nucleophile [active] 522306012496 Recombinase; Region: Recombinase; pfam07508 522306012497 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 522306012498 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 522306012499 DNA binding residues [nucleotide binding] 522306012500 SpoVR family protein; Provisional; Region: PRK11767 522306012501 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 522306012502 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 522306012503 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 522306012504 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 522306012505 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 522306012506 active site residue [active] 522306012507 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522306012508 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 522306012509 FtsX-like permease family; Region: FtsX; cl15850 522306012510 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522306012511 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 522306012512 Walker A/P-loop; other site 522306012513 ATP binding site [chemical binding]; other site 522306012514 Q-loop/lid; other site 522306012515 ABC transporter signature motif; other site 522306012516 Walker B; other site 522306012517 D-loop; other site 522306012518 H-loop/switch region; other site 522306012519 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522306012520 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306012521 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522306012522 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 522306012523 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306012524 Family description; Region: UvrD_C_2; cl15862 522306012525 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 522306012526 HsdM N-terminal domain; Region: HsdM_N; pfam12161 522306012527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306012528 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 522306012529 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 522306012530 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 522306012531 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522306012532 Macro domain, Poa1p_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 ADP-ribose...; Region: Macro_Poa1p_like; cd02901 522306012533 ADP-ribose binding site [chemical binding]; other site 522306012534 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 522306012535 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 522306012536 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 522306012537 ATP binding site [chemical binding]; other site 522306012538 putative Mg++ binding site [ion binding]; other site 522306012539 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 522306012540 NodB motif; other site 522306012541 putative active site [active] 522306012542 putative catalytic site [active] 522306012543 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 522306012544 muropeptide transporter; Validated; Region: ampG; PRK11010 522306012545 muropeptide transporter; Validated; Region: ampG; PRK11010 522306012546 Cytochrome c; Region: Cytochrom_C; cl11414 522306012547 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 522306012548 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 522306012549 dimerization domain [polypeptide binding]; other site 522306012550 dimer interface [polypeptide binding]; other site 522306012551 catalytic residues [active] 522306012552 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306012553 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 522306012554 psiF repeat; Region: PsiF_repeat; pfam07769 522306012555 psiF repeat; Region: PsiF_repeat; pfam07769 522306012556 HPr kinase/phosphorylase; Provisional; Region: PRK05428 522306012557 DRTGG domain; Region: DRTGG; cl12147 522306012558 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 522306012559 Hpr binding site; other site 522306012560 active site 522306012561 homohexamer subunit interaction site [polypeptide binding]; other site 522306012562 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 522306012563 active site 522306012564 phosphorylation site [posttranslational modification] 522306012565 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 522306012566 30S subunit binding site; other site 522306012567 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 522306012568 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 522306012569 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 522306012570 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 522306012571 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 522306012572 Walker A/P-loop; other site 522306012573 ATP binding site [chemical binding]; other site 522306012574 Q-loop/lid; other site 522306012575 ABC transporter signature motif; other site 522306012576 Walker B; other site 522306012577 D-loop; other site 522306012578 H-loop/switch region; other site 522306012579 RecX family; Region: RecX; cl00936 522306012580 recombinase A; Provisional; Region: recA; PRK09354 522306012581 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 522306012582 hexamer interface [polypeptide binding]; other site 522306012583 Walker A motif; other site 522306012584 ATP binding site [chemical binding]; other site 522306012585 Walker B motif; other site 522306012586 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 522306012587 Competence-damaged protein; Region: CinA; cl00666 522306012588 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 522306012589 tetramer interfaces [polypeptide binding]; other site 522306012590 binuclear metal-binding site [ion binding]; other site 522306012591 thiamine monophosphate kinase; Provisional; Region: PRK05731 522306012592 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 522306012593 ATP binding site [chemical binding]; other site 522306012594 dimerization interface [polypeptide binding]; other site 522306012595 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 522306012596 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 522306012597 homopentamer interface [polypeptide binding]; other site 522306012598 active site 522306012599 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 522306012600 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 522306012601 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 522306012602 dimerization interface [polypeptide binding]; other site 522306012603 active site 522306012604 Response regulator receiver domain; Region: Response_reg; pfam00072 522306012605 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 522306012606 active site 522306012607 phosphorylation site [posttranslational modification] 522306012608 intermolecular recognition site; other site 522306012609 dimerization interface [polypeptide binding]; other site 522306012610 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 522306012611 catalytic residues [active] 522306012612 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 522306012613 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306012614 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 522306012615 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 522306012616 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 522306012617 active site 522306012618 catalytic residues [active] 522306012619 metal binding site [ion binding]; metal-binding site 522306012620 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 522306012621 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 522306012622 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306012623 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 522306012624 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 522306012625 carboxyltransferase (CT) interaction site; other site 522306012626 biotinylation site [posttranslational modification]; other site 522306012627 enoyl-CoA hydratase; Provisional; Region: PRK05995 522306012628 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 522306012629 substrate binding site [chemical binding]; other site 522306012630 oxyanion hole (OAH) forming residues; other site 522306012631 trimer interface [polypeptide binding]; other site 522306012632 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 522306012633 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 522306012634 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 522306012635 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 522306012636 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 522306012637 putative catalytic residue [active] 522306012638 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 522306012639 ATP-grasp domain; Region: ATP-grasp_4; cl03087 522306012640 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 522306012641 CoenzymeA binding site [chemical binding]; other site 522306012642 subunit interaction site [polypeptide binding]; other site 522306012643 PHB binding site; other site 522306012644 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 522306012645 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 522306012646 FAD binding site [chemical binding]; other site 522306012647 homotetramer interface [polypeptide binding]; other site 522306012648 substrate binding pocket [chemical binding]; other site 522306012649 catalytic base [active] 522306012650 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 522306012651 EamA-like transporter family; Region: EamA; cl01037 522306012652 EamA-like transporter family; Region: EamA; cl01037 522306012653 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 522306012654 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522306012655 Coenzyme A binding pocket [chemical binding]; other site 522306012656 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 522306012657 active site clefts [active] 522306012658 zinc binding site [ion binding]; other site 522306012659 dimer interface [polypeptide binding]; other site 522306012660 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 522306012661 isovaleryl-CoA dehydrogenase; Region: PLN02519 522306012662 substrate binding site [chemical binding]; other site 522306012663 FAD binding site [chemical binding]; other site 522306012664 catalytic base [active] 522306012665 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 522306012666 CoenzymeA binding site [chemical binding]; other site 522306012667 subunit interaction site [polypeptide binding]; other site 522306012668 PHB binding site; other site 522306012669 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306012670 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 522306012671 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 522306012672 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 522306012673 Sulfatase; Region: Sulfatase; cl10460 522306012674 PglZ domain; Region: PglZ; pfam08665 522306012675 hypothetical protein; Provisional; Region: PRK11295 522306012676 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; cl00083 522306012677 HDOD domain; Region: HDOD; pfam08668 522306012678 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 522306012679 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522306012680 active site 522306012681 HIGH motif; other site 522306012682 nucleotide binding site [chemical binding]; other site 522306012683 Phosphopantetheine attachment site; Region: PP-binding; cl09936 522306012684 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 522306012685 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 522306012686 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 522306012687 Protein of unknown function (DUF971); Region: DUF971; cl01414 522306012688 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 522306012689 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 522306012690 S-adenosylmethionine binding site [chemical binding]; other site 522306012691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306012692 Tim44-like domain; Region: Tim44; cl09208 522306012693 SCP-2 sterol transfer family; Region: SCP2; cl01225 522306012694 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 522306012695 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 522306012696 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 522306012697 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 522306012698 alpha subunit interaction interface [polypeptide binding]; other site 522306012699 Walker A motif; other site 522306012700 ATP binding site [chemical binding]; other site 522306012701 Walker B motif; other site 522306012702 inhibitor binding site; inhibition site 522306012703 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 522306012704 ATP synthase; Region: ATP-synt; cl00365 522306012705 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 522306012706 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 522306012707 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 522306012708 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 522306012709 beta subunit interaction interface [polypeptide binding]; other site 522306012710 Walker A motif; other site 522306012711 ATP binding site [chemical binding]; other site 522306012712 Walker B motif; other site 522306012713 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 522306012714 Plant ATP synthase F0; Region: YMF19; cl07975 522306012715 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 522306012716 Plant ATP synthase F0; Region: YMF19; cl07975 522306012717 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 522306012718 ATP synthase subunit C; Region: ATP-synt_C; cl00466 522306012719 ATP synthase A chain; Region: ATP-synt_A; cl00413 522306012720 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 522306012721 ParB-like nuclease domain; Region: ParBc; cl02129 522306012722 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 522306012723 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 522306012724 P-loop; other site 522306012725 Magnesium ion binding site [ion binding]; other site 522306012726 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 522306012727 Magnesium ion binding site [ion binding]; other site 522306012728 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 522306012729 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 522306012730 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522306012731 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 522306012732 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 522306012733 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 522306012734 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522306012735 catalytic residue [active] 522306012736 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 522306012737 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 522306012738 trimerization site [polypeptide binding]; other site 522306012739 active site 522306012740 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 522306012741 NifU-like domain; Region: NifU; cl00484 522306012742 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 522306012743 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 522306012744 4Fe-4S binding domain; Region: Fer4; cl02805 522306012745 Rop-like; Region: Rop-like; cl02247 522306012746 Protein of unknown function, DUF269; Region: DUF269; cl03973 522306012747 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 522306012748 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. The protein...; Region: NifX; cd00853 522306012749 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 522306012750 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 522306012751 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 522306012752 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 522306012753 NifQ; Region: NifQ; pfam04891 522306012754 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 522306012755 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 522306012756 active site 522306012757 catalytic residues [active] 522306012758 metal binding site [ion binding]; metal-binding site 522306012759 Nitrogen fixation protein NifW; Region: NifW; cl03935 522306012760 NifZ domain; Region: NifZ; pfam04319 522306012761 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 522306012762 PPIC-type PPIASE domain; Region: Rotamase; cl08278 522306012763 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 522306012764 AMP-binding enzyme; Region: AMP-binding; cl15778 522306012765 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 522306012766 Phosphopantetheine attachment site; Region: PP-binding; cl09936 522306012767 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 522306012768 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 522306012769 non-specific DNA binding site [nucleotide binding]; other site 522306012770 salt bridge; other site 522306012771 sequence-specific DNA binding site [nucleotide binding]; other site 522306012772 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 522306012773 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306012774 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 522306012775 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 522306012776 FMN-binding domain; Region: FMN_bind; cl01081 522306012777 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 522306012778 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 522306012779 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 522306012780 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 522306012781 SLBB domain; Region: SLBB; pfam10531 522306012782 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 522306012783 electron transport complex protein RnfB; Provisional; Region: PRK05113 522306012784 Putative Fe-S cluster; Region: FeS; pfam04060 522306012785 4Fe-4S binding domain; Region: Fer4; cl02805 522306012786 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 522306012787 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 522306012788 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 522306012789 putative active site [active] 522306012790 heme pocket [chemical binding]; other site 522306012791 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 522306012792 ATP binding site [chemical binding]; other site 522306012793 Mg2+ binding site [ion binding]; other site 522306012794 G-X-G motif; other site 522306012795 Nif-specific regulatory protein; Region: nifA; TIGR01817 522306012796 GAF domain; Region: GAF; cl15785 522306012797 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 522306012798 Walker A motif; other site 522306012799 ATP binding site [chemical binding]; other site 522306012800 Walker B motif; other site 522306012801 arginine finger; other site 522306012802 Helix-turn-helix domains; Region: HTH; cl00088 522306012803 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 522306012804 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 522306012805 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 522306012806 putative active site [active] 522306012807 putative NTP binding site [chemical binding]; other site 522306012808 putative nucleic acid binding site [nucleotide binding]; other site 522306012809 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 522306012810 Helix-turn-helix domains; Region: HTH; cl00088 522306012811 Integrase core domain; Region: rve; cl01316 522306012812 Integrase core domain; Region: rve_3; cl15866 522306012813 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 522306012814 AAA domain; Region: AAA_22; pfam13401 522306012815 Walker A motif; other site 522306012816 ATP binding site [chemical binding]; other site 522306012817 Walker B motif; other site 522306012818 arginine finger; other site 522306012819 transposase/IS protein; Provisional; Region: PRK09183 522306012820 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 522306012821 Walker A motif; other site 522306012822 ATP binding site [chemical binding]; other site 522306012823 Walker B motif; other site 522306012824 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 522306012825 Protein of unknown function (DUF433); Region: DUF433; cl01030 522306012826 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 522306012827 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 522306012828 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 522306012829 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 522306012830 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 522306012831 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 522306012832 FeS/SAM binding site; other site 522306012833 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes 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 as part of...; Region: NifB; cd00852 522306012834 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 522306012835 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also...; Region: ArsC_15kD; cd03033 522306012836 putative catalytic residues [active] 522306012837 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 522306012838 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522306012839 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 522306012840 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 522306012841 catalytic loop [active] 522306012842 iron binding site [ion binding]; other site 522306012843 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 522306012844 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 522306012845 catalytic loop [active] 522306012846 iron binding site [ion binding]; other site 522306012847 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 522306012848 putative oxidoreductase; Provisional; Region: PRK08275 522306012849 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 522306012850 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 522306012851 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 522306012852 FMN-binding domain; Region: FMN_bind; cl01081 522306012853 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 522306012854 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 522306012855 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 522306012856 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 522306012857 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 522306012858 catalytic loop [active] 522306012859 iron binding site [ion binding]; other site 522306012860 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 522306012861 FAD binding pocket [chemical binding]; other site 522306012862 FAD binding motif [chemical binding]; other site 522306012863 phosphate binding motif [ion binding]; other site 522306012864 beta-alpha-beta structure motif; other site 522306012865 NAD binding pocket [chemical binding]; other site 522306012866 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 522306012867 GAF domain; Region: GAF_2; pfam13185 522306012868 GAF domain; Region: GAF; cl15785 522306012869 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 522306012870 PAS fold; Region: PAS_3; pfam08447 522306012871 putative active site [active] 522306012872 heme pocket [chemical binding]; other site 522306012873 PAS domain S-box; Region: sensory_box; TIGR00229 522306012874 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 522306012875 putative active site [active] 522306012876 heme pocket [chemical binding]; other site 522306012877 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 522306012878 PAS fold; Region: PAS_3; pfam08447 522306012879 putative active site [active] 522306012880 heme pocket [chemical binding]; other site 522306012881 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 522306012882 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 522306012883 ATP binding site [chemical binding]; other site 522306012884 Mg2+ binding site [ion binding]; other site 522306012885 G-X-G motif; other site 522306012886 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522306012887 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 522306012888 active site 522306012889 phosphorylation site [posttranslational modification] 522306012890 intermolecular recognition site; other site 522306012891 dimerization interface [polypeptide binding]; other site 522306012892 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 522306012893 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 522306012894 putative active site [active] 522306012895 homotetrameric interface [polypeptide binding]; other site 522306012896 metal binding site [ion binding]; metal-binding site 522306012897 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 522306012898 DNA-binding site [nucleotide binding]; DNA binding site 522306012899 RNA-binding motif; other site 522306012900 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 522306012901 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 522306012902 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 522306012903 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 522306012904 Nucleotide-binding sites [chemical binding]; other site 522306012905 Walker A motif; other site 522306012906 Switch I region of nucleotide binding site; other site 522306012907 Fe4S4 binding sites [ion binding]; other site 522306012908 Switch II region of nucleotide binding site; other site 522306012909 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 522306012910 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 522306012911 MoFe protein alpha/beta subunit interactions; other site 522306012912 Alpha subunit P cluster binding residues; other site 522306012913 FeMoco binding residues [chemical binding]; other site 522306012914 MoFe protein alpha subunit/Fe protein contacts; other site 522306012915 MoFe protein dimer/ dimer interactions; other site 522306012916 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 522306012917 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 522306012918 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 522306012919 MoFe protein beta/alpha subunit interactions; other site 522306012920 Beta subunit P cluster binding residues; other site 522306012921 MoFe protein beta subunit/Fe protein contacts; other site 522306012922 MoFe protein dimer/ dimer interactions; other site 522306012923 NifT/FixU protein; Region: NifT; cl02351 522306012924 hypothetical protein; Provisional; Region: PRK13795 522306012925 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. The protein...; Region: NifX; cd00853 522306012926 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 522306012927 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 522306012928 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 522306012929 putative PBP binding loops; other site 522306012930 ABC-ATPase subunit interface; other site 522306012931 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 522306012932 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 522306012933 Walker A/P-loop; other site 522306012934 ATP binding site [chemical binding]; other site 522306012935 Q-loop/lid; other site 522306012936 ABC transporter signature motif; other site 522306012937 Walker B; other site 522306012938 D-loop; other site 522306012939 H-loop/switch region; other site 522306012940 TOBE domain; Region: TOBE_2; cl01440 522306012941 peroxiredoxin; Region: AhpC; TIGR03137 522306012942 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 522306012943 dimer interface [polypeptide binding]; other site 522306012944 decamer (pentamer of dimers) interface [polypeptide binding]; other site 522306012945 catalytic triad [active] 522306012946 peroxidatic and resolving cysteines [active] 522306012947 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 522306012948 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 522306012949 catalytic residue [active] 522306012950 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 522306012951 catalytic residues [active] 522306012952 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522306012953 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306012954 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 522306012955 Sulfate transporter family; Region: Sulfate_transp; cl15842 522306012956 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 522306012957 VacJ like lipoprotein; Region: VacJ; cl01073 522306012958 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 522306012959 Response regulator receiver domain; Region: Response_reg; pfam00072 522306012960 active site 522306012961 phosphorylation site [posttranslational modification] 522306012962 intermolecular recognition site; other site 522306012963 dimerization interface [polypeptide binding]; other site 522306012964 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 522306012965 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 522306012966 binding surface 522306012967 TPR motif; other site 522306012968 Helix-turn-helix domains; Region: HTH; cl00088 522306012969 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 522306012970 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 522306012971 putative dimerization interface [polypeptide binding]; other site 522306012972 tellurium resistance terB-like protein; Region: terB_like; cl11965 522306012973 metal binding site [ion binding]; metal-binding site 522306012974 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 522306012975 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 522306012976 Walker A/P-loop; other site 522306012977 ATP binding site [chemical binding]; other site 522306012978 Q-loop/lid; other site 522306012979 ABC transporter signature motif; other site 522306012980 Walker B; other site 522306012981 D-loop; other site 522306012982 H-loop/switch region; other site 522306012983 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 522306012984 TM-ABC transporter signature motif; other site 522306012985 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 522306012986 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 522306012987 Walker A/P-loop; other site 522306012988 ATP binding site [chemical binding]; other site 522306012989 Q-loop/lid; other site 522306012990 ABC transporter signature motif; other site 522306012991 Walker B; other site 522306012992 D-loop; other site 522306012993 H-loop/switch region; other site 522306012994 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 522306012995 TM-ABC transporter signature motif; other site 522306012996 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 522306012997 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 522306012998 putative ligand binding site [chemical binding]; other site 522306012999 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 522306013000 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 522306013001 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 522306013002 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 522306013003 S-adenosylmethionine binding site [chemical binding]; other site 522306013004 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 522306013005 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 522306013006 trmE is a tRNA modification GTPase; Region: trmE; cd04164 522306013007 G1 box; other site 522306013008 GTP/Mg2+ binding site [chemical binding]; other site 522306013009 Switch I region; other site 522306013010 G2 box; other site 522306013011 Switch II region; other site 522306013012 G3 box; other site 522306013013 G4 box; other site 522306013014 G5 box; other site 522306013015 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 522306013016 membrane protein insertase; Provisional; Region: PRK01318 522306013017 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 522306013018 Haemolytic domain; Region: Haemolytic; cl00506 522306013019 Ribonuclease P; Region: Ribonuclease_P; cl00457