-- dump date 20140619_093331 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1166018000001 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1166018000002 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1166018000003 tetramer interface [polypeptide binding]; other site 1166018000004 heme binding pocket [chemical binding]; other site 1166018000005 NADPH binding site [chemical binding]; other site 1166018000006 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1166018000007 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1166018000008 dimerization interface [polypeptide binding]; other site 1166018000009 DPS ferroxidase diiron center [ion binding]; other site 1166018000010 ion pore; other site 1166018000011 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1166018000012 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1166018000013 dimerization interface [polypeptide binding]; other site 1166018000014 DPS ferroxidase diiron center [ion binding]; other site 1166018000015 ion pore; other site 1166018000016 putative transposase OrfB; Reviewed; Region: PHA02517 1166018000017 HTH-like domain; Region: HTH_21; pfam13276 1166018000018 Integrase core domain; Region: rve; pfam00665 1166018000019 Integrase core domain; Region: rve_3; pfam13683 1166018000020 Transposase; Region: HTH_Tnp_1; pfam01527 1166018000021 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1166018000022 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 1166018000023 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 1166018000024 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018000025 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1166018000026 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1166018000027 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1166018000028 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018000029 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018000030 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018000031 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 1166018000032 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1166018000033 active site 1166018000034 metal binding site [ion binding]; metal-binding site 1166018000035 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018000036 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018000037 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018000038 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 1166018000039 DNA binding residues [nucleotide binding] 1166018000040 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018000041 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018000042 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018000043 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 1166018000044 PAP2_like_5 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_5; cd03394 1166018000045 active site 1166018000046 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1166018000047 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 1166018000048 active site 1166018000049 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1166018000050 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1166018000051 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1166018000052 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 1166018000053 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 1166018000054 Domain of unknown function (DUF932); Region: DUF932; cl12129 1166018000055 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1166018000056 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1166018000057 Peptidase family M23; Region: Peptidase_M23; pfam01551 1166018000058 Toprim-like; Region: Toprim_2; pfam13155 1166018000059 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 1166018000060 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1166018000061 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1166018000062 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1166018000063 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1166018000064 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 1166018000065 T5orf172 domain; Region: T5orf172; pfam10544 1166018000066 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1166018000067 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 1166018000068 P-loop; other site 1166018000069 Magnesium ion binding site [ion binding]; other site 1166018000070 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1166018000071 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1166018000072 Conjugative transposon protein TraO; Region: TraO; pfam10626 1166018000073 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 1166018000074 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 1166018000075 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 1166018000076 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 1166018000077 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 1166018000078 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 1166018000079 Domain of unknown function DUF87; Region: DUF87; pfam01935 1166018000080 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 1166018000081 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 1166018000082 conjugal transfer ATPase TrbB; Provisional; Region: PRK13894 1166018000083 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1166018000084 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 1166018000085 P-loop; other site 1166018000086 Magnesium ion binding site [ion binding]; other site 1166018000087 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 1166018000088 5' RNA guide strand anchoring site; other site 1166018000089 active site 1166018000090 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1166018000091 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1166018000092 DNA methylase; Region: N6_N4_Mtase; pfam01555 1166018000093 DNA methylase; Region: N6_N4_Mtase; pfam01555 1166018000094 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1166018000095 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1166018000096 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 1166018000097 non-specific DNA binding site [nucleotide binding]; other site 1166018000098 salt bridge; other site 1166018000099 sequence-specific DNA binding site [nucleotide binding]; other site 1166018000100 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 1166018000101 active site 1166018000102 NTP binding site [chemical binding]; other site 1166018000103 metal binding triad [ion binding]; metal-binding site 1166018000104 Predicted ATPases [General function prediction only]; Region: COG1106 1166018000105 RloB-like protein; Region: RloB; pfam13707 1166018000106 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 1166018000107 DNA binding site [nucleotide binding] 1166018000108 dimer interface [polypeptide binding]; other site 1166018000109 active site 1166018000110 Int/Topo IB signature motif; other site 1166018000111 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14466 1166018000112 Initiator Replication protein; Region: Rep_3; pfam01051 1166018000113 Histidine kinase; Region: His_kinase; pfam06580 1166018000114 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018000115 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 1166018000116 active site 1166018000117 phosphorylation site [posttranslational modification] 1166018000118 intermolecular recognition site; other site 1166018000119 dimerization interface [polypeptide binding]; other site 1166018000120 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018000121 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 1166018000122 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 1166018000123 thiopeptide-type bacteriocin biosynthesis domain; Region: thiopep_ocin; TIGR03891 1166018000124 NAD-dependent deacetylase; Provisional; Region: PRK00481 1166018000125 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 1166018000126 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 1166018000127 S-adenosylmethionine binding site [chemical binding]; other site 1166018000128 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1166018000129 multicopper oxidase; Provisional; Region: PRK10965 1166018000130 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1166018000131 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1166018000132 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1166018000133 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 1166018000134 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018000135 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018000136 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1166018000137 metal-binding site [ion binding] 1166018000138 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1166018000139 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1166018000140 Outer membrane efflux protein; Region: OEP; pfam02321 1166018000141 Outer membrane efflux protein; Region: OEP; pfam02321 1166018000142 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018000143 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018000144 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1166018000145 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018000146 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 1166018000147 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1166018000148 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1166018000149 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 1166018000150 motif II; other site 1166018000151 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1166018000152 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1166018000153 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018000154 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1166018000155 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 1166018000156 metal-binding site [ion binding] 1166018000157 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1166018000158 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1166018000159 Protein of unknown function (DUF563); Region: DUF563; pfam04577 1166018000160 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1166018000161 metal-binding site [ion binding] 1166018000162 Domain of unknown function (DUF305); Region: DUF305; cl17794 1166018000163 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1166018000164 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1166018000165 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1166018000166 Protein of unknown function, DUF481; Region: DUF481; cl01213 1166018000167 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1166018000168 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1166018000169 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1166018000170 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1166018000171 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018000172 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1166018000173 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018000174 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 1166018000175 Low affinity iron permease; Region: Iron_permease; pfam04120 1166018000176 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 1166018000177 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 1166018000178 active site 1166018000179 dimer interface [polypeptide binding]; other site 1166018000180 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1166018000181 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1166018000182 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1166018000183 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1166018000184 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1166018000185 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1166018000186 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018000187 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 1166018000188 active site 1166018000189 phosphorylation site [posttranslational modification] 1166018000190 intermolecular recognition site; other site 1166018000191 dimerization interface [polypeptide binding]; other site 1166018000192 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 1166018000193 DNA binding site [nucleotide binding] 1166018000194 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1166018000195 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 1166018000196 dimer interface [polypeptide binding]; other site 1166018000197 phosphorylation site [posttranslational modification] 1166018000198 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 1166018000199 ATP binding site [chemical binding]; other site 1166018000200 Mg2+ binding site [ion binding]; other site 1166018000201 G-X-G motif; other site 1166018000202 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 1166018000203 Outer membrane efflux protein; Region: OEP; pfam02321 1166018000204 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1166018000205 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018000206 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018000207 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018000208 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1166018000209 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 1166018000210 Cl- selectivity filter; other site 1166018000211 Cl- binding residues [ion binding]; other site 1166018000212 pore gating glutamate residue; other site 1166018000213 dimer interface [polypeptide binding]; other site 1166018000214 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 1166018000215 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 1166018000216 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1166018000217 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018000218 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018000219 Sodium Bile acid symporter family; Region: SBF; cl17470 1166018000220 Predicted membrane protein [Function unknown]; Region: COG2510 1166018000221 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1166018000222 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 1166018000223 dimer interface [polypeptide binding]; other site 1166018000224 phosphorylation site [posttranslational modification] 1166018000225 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 1166018000226 ATP binding site [chemical binding]; other site 1166018000227 Mg2+ binding site [ion binding]; other site 1166018000228 G-X-G motif; other site 1166018000229 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018000230 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 1166018000231 active site 1166018000232 phosphorylation site [posttranslational modification] 1166018000233 intermolecular recognition site; other site 1166018000234 dimerization interface [polypeptide binding]; other site 1166018000235 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 1166018000236 DNA binding site [nucleotide binding] 1166018000237 CCC1; Region: CCC1; cd02435 1166018000238 H+ Antiporter protein; Region: 2A0121; TIGR00900 1166018000239 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 1166018000240 putative substrate translocation pore; other site 1166018000241 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018000242 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018000243 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018000244 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1166018000245 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1166018000246 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 1166018000247 Walker A motif; other site 1166018000248 ATP binding site [chemical binding]; other site 1166018000249 Walker B motif; other site 1166018000250 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; cl17189 1166018000251 arginine finger; other site 1166018000252 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 1166018000253 DnaA box-binding interface [nucleotide binding]; other site 1166018000254 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 1166018000255 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1166018000256 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1166018000257 Predicted aminopeptidase (DUF2265); Region: DUF2265; cl17720 1166018000258 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1166018000259 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1166018000260 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1166018000261 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1166018000262 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 1166018000263 putative active site [active] 1166018000264 catalytic triad [active] 1166018000265 putative dimer interface [polypeptide binding]; other site 1166018000266 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1166018000267 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1166018000268 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1166018000269 Phosphotransferase enzyme family; Region: APH; pfam01636 1166018000270 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1166018000271 active site 1166018000272 ATP binding site [chemical binding]; other site 1166018000273 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1166018000274 substrate binding site [chemical binding]; other site 1166018000275 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 1166018000276 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1166018000277 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1166018000278 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 1166018000279 putative active site [active] 1166018000280 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 1166018000281 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1166018000282 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018000283 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1166018000284 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 1166018000285 dimer interface [polypeptide binding]; other site 1166018000286 active site 1166018000287 CoA binding pocket [chemical binding]; other site 1166018000288 hypothetical protein; Provisional; Region: PRK09256 1166018000289 Rhomboid family; Region: Rhomboid; pfam01694 1166018000290 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1166018000291 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1166018000292 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1166018000293 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 1166018000294 ATP binding site [chemical binding]; other site 1166018000295 Mg2+ binding site [ion binding]; other site 1166018000296 G-X-G motif; other site 1166018000297 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1166018000298 ATP binding site [chemical binding]; other site 1166018000299 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1166018000300 enoyl-CoA hydratase; Provisional; Region: PRK05995 1166018000301 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 1166018000302 substrate binding site [chemical binding]; other site 1166018000303 oxyanion hole (OAH) forming residues; other site 1166018000304 trimer interface [polypeptide binding]; other site 1166018000305 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018000306 Coenzyme A binding pocket [chemical binding]; other site 1166018000307 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1166018000308 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 1166018000309 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 1166018000310 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 1166018000311 four helix bundle protein; Region: TIGR02436 1166018000312 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1166018000313 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1166018000314 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1166018000315 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1166018000316 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1166018000317 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1166018000318 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1166018000319 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 1166018000320 putative active site [active] 1166018000321 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018000322 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 1166018000323 active site 1166018000324 phosphorylation site [posttranslational modification] 1166018000325 intermolecular recognition site; other site 1166018000326 dimerization interface [polypeptide binding]; other site 1166018000327 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018000328 Histidine kinase; Region: His_kinase; pfam06580 1166018000329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018000330 TIGR01777 family protein; Region: yfcH 1166018000331 NAD(P) binding site [chemical binding]; other site 1166018000332 active site 1166018000333 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1166018000334 YhhN-like protein; Region: YhhN; pfam07947 1166018000335 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1166018000336 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 1166018000337 catalytic core [active] 1166018000338 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1166018000339 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1166018000340 motif 1; other site 1166018000341 active site 1166018000342 motif 2; other site 1166018000343 motif 3; other site 1166018000344 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1166018000345 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1166018000346 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1166018000347 DNA binding residues [nucleotide binding] 1166018000348 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018000349 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018000350 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018000351 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018000352 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018000353 Immunoglobulin domain; Region: Ig_2; pfam13895 1166018000354 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018000355 tyrosine decarboxylase; Region: PLN02880 1166018000356 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 1166018000357 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018000358 catalytic residue [active] 1166018000359 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018000360 YCII-related domain; Region: YCII; cl00999 1166018000361 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1166018000362 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1166018000363 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1166018000364 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 1166018000365 active site 1166018000366 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000367 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000368 FtsX-like permease family; Region: FtsX; pfam02687 1166018000369 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 1166018000370 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018000371 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018000372 ligand binding site [chemical binding]; other site 1166018000373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018000374 oxidoreductase; Validated; Region: PRK05717 1166018000375 NAD(P) binding site [chemical binding]; other site 1166018000376 active site 1166018000377 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018000378 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018000379 Interdomain contacts; other site 1166018000380 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1166018000381 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 1166018000382 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1166018000383 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 1166018000384 Curli assembly protein CsgE; Region: CsgE; cl08115 1166018000385 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1166018000386 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1166018000387 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1166018000388 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000389 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000390 FtsX-like permease family; Region: FtsX; pfam02687 1166018000391 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 1166018000392 PAS domain; Region: PAS_9; pfam13426 1166018000393 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 1166018000394 dimer interface [polypeptide binding]; other site 1166018000395 phosphorylation site [posttranslational modification] 1166018000396 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 1166018000397 ATP binding site [chemical binding]; other site 1166018000398 G-X-G motif; other site 1166018000399 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000400 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000401 FtsX-like permease family; Region: FtsX; pfam02687 1166018000402 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000403 FtsX-like permease family; Region: FtsX; pfam02687 1166018000404 Ion transport protein; Region: Ion_trans; pfam00520 1166018000405 Ion channel; Region: Ion_trans_2; pfam07885 1166018000406 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1166018000407 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 1166018000408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018000409 homodimer interface [polypeptide binding]; other site 1166018000410 catalytic residue [active] 1166018000411 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1166018000412 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1166018000413 NAD binding site [chemical binding]; other site 1166018000414 catalytic Zn binding site [ion binding]; other site 1166018000415 structural Zn binding site [ion binding]; other site 1166018000416 PIN domain; Region: PIN_3; cl17397 1166018000417 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1166018000418 Clp amino terminal domain; Region: Clp_N; pfam02861 1166018000419 Clp amino terminal domain; Region: Clp_N; pfam02861 1166018000420 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 1166018000421 Walker A motif; other site 1166018000422 ATP binding site [chemical binding]; other site 1166018000423 Walker B motif; other site 1166018000424 arginine finger; other site 1166018000425 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 1166018000426 Walker A motif; other site 1166018000427 ATP binding site [chemical binding]; other site 1166018000428 Walker B motif; other site 1166018000429 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1166018000430 Late embryogenesis abundant protein; Region: LEA_2; cl12118 1166018000431 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018000432 SusD family; Region: SusD; pfam07980 1166018000433 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018000434 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018000435 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018000436 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018000437 phytoene desaturase; Region: crtI_fam; TIGR02734 1166018000438 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018000439 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1166018000440 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 1166018000441 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 1166018000442 ATP binding site [chemical binding]; other site 1166018000443 substrate interface [chemical binding]; other site 1166018000444 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 1166018000445 active site residue [active] 1166018000446 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1166018000447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 1166018000448 OstA-like protein; Region: OstA; cl00844 1166018000449 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018000450 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000451 FtsX-like permease family; Region: FtsX; pfam02687 1166018000452 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000453 FtsX-like permease family; Region: FtsX; pfam02687 1166018000454 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000455 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1166018000456 FtsX-like permease family; Region: FtsX; pfam02687 1166018000457 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1166018000458 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000459 FtsX-like permease family; Region: FtsX; pfam02687 1166018000460 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000461 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1166018000462 FtsX-like permease family; Region: FtsX; pfam02687 1166018000463 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000464 FtsX-like permease family; Region: FtsX; pfam02687 1166018000465 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000466 FtsX-like permease family; Region: FtsX; pfam02687 1166018000467 Predicted transcriptional regulators [Transcription]; Region: COG1695 1166018000468 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1166018000469 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000470 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000471 FtsX-like permease family; Region: FtsX; pfam02687 1166018000472 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000473 FtsX-like permease family; Region: FtsX; pfam02687 1166018000474 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000475 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000476 FtsX-like permease family; Region: FtsX; pfam02687 1166018000477 FtsX-like permease family; Region: FtsX; pfam02687 1166018000478 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000479 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000480 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1166018000481 Penicillinase repressor; Region: Pencillinase_R; cl17580 1166018000482 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018000483 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 1166018000484 DNA binding site [nucleotide binding] 1166018000485 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1166018000486 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1166018000487 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018000488 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1166018000489 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1166018000490 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1166018000491 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 1166018000492 catalytic loop [active] 1166018000493 iron binding site [ion binding]; other site 1166018000494 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1166018000495 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1166018000496 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1166018000497 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1166018000498 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1166018000499 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 1166018000500 putative catalytic site [active] 1166018000501 putative metal binding site [ion binding]; other site 1166018000502 putative phosphate binding site [ion binding]; other site 1166018000503 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1166018000504 Sodium Bile acid symporter family; Region: SBF; pfam01758 1166018000505 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1166018000506 dihydroorotase; Provisional; Region: PRK09237 1166018000507 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 1166018000508 active site 1166018000509 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 1166018000510 homotrimer interaction site [polypeptide binding]; other site 1166018000511 putative active site [active] 1166018000512 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1166018000513 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1166018000514 Cytochrome c; Region: Cytochrom_C; pfam00034 1166018000515 dihydroorotase; Provisional; Region: PRK09237 1166018000516 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 1166018000517 active site 1166018000518 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 1166018000519 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018000520 catalytic residue [active] 1166018000521 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 1166018000522 putative ligand binding site [chemical binding]; other site 1166018000523 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 1166018000524 homotrimer interaction site [polypeptide binding]; other site 1166018000525 putative active site [active] 1166018000526 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 1166018000527 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018000528 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018000529 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018000530 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018000531 FecR protein; Region: FecR; pfam04773 1166018000532 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018000533 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 1166018000534 DNA binding residues [nucleotide binding] 1166018000535 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1166018000536 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1166018000537 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1166018000538 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1166018000539 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1166018000540 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 1166018000541 ligand binding site [chemical binding]; other site 1166018000542 flexible hinge region; other site 1166018000543 Predicted membrane protein [Function unknown]; Region: COG4270 1166018000544 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1166018000545 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1166018000546 MlrC C-terminus; Region: MlrC_C; pfam07171 1166018000547 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1166018000548 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 1166018000549 putative NAD(P) binding site [chemical binding]; other site 1166018000550 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1166018000551 MarR family; Region: MarR_2; pfam12802 1166018000552 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1166018000553 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018000554 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018000555 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1166018000556 Protein export membrane protein; Region: SecD_SecF; cl14618 1166018000557 DNA helicase, putative; Region: TIGR00376 1166018000558 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 1166018000559 ATP binding site [chemical binding]; other site 1166018000560 putative Mg++ binding site [ion binding]; other site 1166018000561 AAA domain; Region: AAA_12; pfam13087 1166018000562 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018000563 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018000564 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1166018000565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018000566 NAD(P) binding site [chemical binding]; other site 1166018000567 active site 1166018000568 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018000569 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018000570 Protein of unknown function (DUF1059); Region: DUF1059; pfam06348 1166018000571 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1166018000572 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018000573 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018000574 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018000575 Epoxide hydrolase N terminus; Region: EHN; pfam06441 1166018000576 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1166018000577 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1166018000578 Family description; Region: VCBS; pfam13517 1166018000579 Family description; Region: VCBS; pfam13517 1166018000580 Family description; Region: VCBS; pfam13517 1166018000581 Family description; Region: VCBS; pfam13517 1166018000582 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 1166018000583 Family description; Region: VCBS; pfam13517 1166018000584 Family description; Region: VCBS; pfam13517 1166018000585 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018000586 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018000587 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018000588 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018000589 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018000590 Endo-beta-mannanase [Carbohydrate transport and metabolism]; Region: COG3934 1166018000591 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 1166018000592 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000593 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000594 FtsX-like permease family; Region: FtsX; pfam02687 1166018000595 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000596 FtsX-like permease family; Region: FtsX; pfam02687 1166018000597 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1166018000598 putative hydrophobic ligand binding site [chemical binding]; other site 1166018000599 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 1166018000600 dimerization interface [polypeptide binding]; other site 1166018000601 putative DNA binding site [nucleotide binding]; other site 1166018000602 putative Zn2+ binding site [ion binding]; other site 1166018000603 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 1166018000604 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018000605 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018000606 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018000607 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018000608 Beta-lactamase; Region: Beta-lactamase; pfam00144 1166018000609 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000610 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000611 FtsX-like permease family; Region: FtsX; pfam02687 1166018000612 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000613 FtsX-like permease family; Region: FtsX; pfam02687 1166018000614 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000615 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000616 FtsX-like permease family; Region: FtsX; pfam02687 1166018000617 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000618 FtsX-like permease family; Region: FtsX; pfam02687 1166018000619 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1166018000620 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1166018000621 Putative zinc-finger; Region: zf-HC2; pfam13490 1166018000622 HEAT repeats; Region: HEAT_2; pfam13646 1166018000623 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1166018000624 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018000625 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327; cl12363 1166018000626 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 1166018000627 DNA binding residues [nucleotide binding] 1166018000628 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018000629 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1166018000630 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 1166018000631 putative active site [active] 1166018000632 putative metal binding site [ion binding]; other site 1166018000633 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 1166018000634 Cytochrome c; Region: Cytochrom_C; cl11414 1166018000635 Cytochrome c; Region: Cytochrom_C; pfam00034 1166018000636 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018000637 Uncharacterized conserved protein (COG2071); Region: DUF2071; pfam09844 1166018000638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018000639 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1166018000640 NAD(P) binding site [chemical binding]; other site 1166018000641 active site 1166018000642 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1166018000643 extended (e) SDRs; Region: SDR_e; cd08946 1166018000644 NAD(P) binding site [chemical binding]; other site 1166018000645 active site 1166018000646 substrate binding site [chemical binding]; other site 1166018000647 Predicted transcriptional regulators [Transcription]; Region: COG1695 1166018000648 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1166018000649 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000650 FtsX-like permease family; Region: FtsX; pfam02687 1166018000651 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000652 FtsX-like permease family; Region: FtsX; pfam02687 1166018000653 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1166018000654 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000655 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1166018000656 FtsX-like permease family; Region: FtsX; pfam02687 1166018000657 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1166018000658 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000659 FtsX-like permease family; Region: FtsX; pfam02687 1166018000660 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 1166018000661 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1166018000662 Sulfatase; Region: Sulfatase; cl17466 1166018000663 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018000664 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1166018000665 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1166018000666 active site 1166018000667 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1166018000668 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 1166018000669 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 1166018000670 active site 1166018000671 phosphorylation site [posttranslational modification] 1166018000672 intermolecular recognition site; other site 1166018000673 dimerization interface [polypeptide binding]; other site 1166018000674 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018000675 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1166018000676 Histidine kinase; Region: His_kinase; pfam06580 1166018000677 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1166018000678 ATP binding site [chemical binding]; other site 1166018000679 Mg2+ binding site [ion binding]; other site 1166018000680 G-X-G motif; other site 1166018000681 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 1166018000682 putative active site [active] 1166018000683 Zn binding site [ion binding]; other site 1166018000684 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1166018000685 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 1166018000686 active site residue [active] 1166018000687 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 1166018000688 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018000689 catalytic residues [active] 1166018000690 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1166018000691 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1166018000692 active site 1166018000693 Zn binding site [ion binding]; other site 1166018000694 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000695 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000696 FtsX-like permease family; Region: FtsX; pfam02687 1166018000697 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000698 FtsX-like permease family; Region: FtsX; pfam02687 1166018000699 Cupin domain; Region: Cupin_2; cl17218 1166018000700 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000701 FtsX-like permease family; Region: FtsX; pfam02687 1166018000702 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000703 FtsX-like permease family; Region: FtsX; pfam02687 1166018000704 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000705 FtsX-like permease family; Region: FtsX; pfam02687 1166018000706 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000707 FtsX-like permease family; Region: FtsX; pfam02687 1166018000708 Predicted transcriptional regulators [Transcription]; Region: COG1695 1166018000709 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1166018000710 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1166018000711 putative active site [active] 1166018000712 putative metal binding site [ion binding]; other site 1166018000713 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1166018000714 M28 Zn-Peptidases; Region: M28_like_4; cd08015 1166018000715 Peptidase family M28; Region: Peptidase_M28; pfam04389 1166018000716 metal binding site [ion binding]; metal-binding site 1166018000717 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 1166018000718 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018000719 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 1166018000720 dimer interface [polypeptide binding]; other site 1166018000721 phosphorylation site [posttranslational modification] 1166018000722 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 1166018000723 ATP binding site [chemical binding]; other site 1166018000724 Mg2+ binding site [ion binding]; other site 1166018000725 G-X-G motif; other site 1166018000726 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018000727 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 1166018000728 active site 1166018000729 phosphorylation site [posttranslational modification] 1166018000730 intermolecular recognition site; other site 1166018000731 dimerization interface [polypeptide binding]; other site 1166018000732 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 1166018000733 DNA binding site [nucleotide binding] 1166018000734 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1166018000735 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1166018000736 DNA binding residues [nucleotide binding] 1166018000737 dimer interface [polypeptide binding]; other site 1166018000738 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1166018000739 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1166018000740 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 1166018000741 active site 1166018000742 metal binding site [ion binding]; metal-binding site 1166018000743 Outer membrane efflux protein; Region: OEP; pfam02321 1166018000744 Outer membrane efflux protein; Region: OEP; pfam02321 1166018000745 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1166018000746 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018000747 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018000748 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000749 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000750 FtsX-like permease family; Region: FtsX; pfam02687 1166018000751 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000752 FtsX-like permease family; Region: FtsX; pfam02687 1166018000753 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000754 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000755 FtsX-like permease family; Region: FtsX; pfam02687 1166018000756 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000757 FtsX-like permease family; Region: FtsX; pfam02687 1166018000758 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1166018000759 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000760 FtsX-like permease family; Region: FtsX; pfam02687 1166018000761 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000762 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1166018000763 FtsX-like permease family; Region: FtsX; pfam02687 1166018000764 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000765 FtsX-like permease family; Region: FtsX; pfam02687 1166018000766 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000767 FtsX-like permease family; Region: FtsX; pfam02687 1166018000768 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 1166018000769 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000770 FtsX-like permease family; Region: FtsX; pfam02687 1166018000771 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000772 FtsX-like permease family; Region: FtsX; pfam02687 1166018000773 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000774 FtsX-like permease family; Region: FtsX; pfam02687 1166018000775 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000776 FtsX-like permease family; Region: FtsX; pfam02687 1166018000777 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000778 FtsX-like permease family; Region: FtsX; pfam02687 1166018000779 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000780 FtsX-like permease family; Region: FtsX; pfam02687 1166018000781 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000782 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000783 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000784 FtsX-like permease family; Region: FtsX; pfam02687 1166018000785 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000786 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1166018000787 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000788 FtsX-like permease family; Region: FtsX; pfam02687 1166018000789 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000790 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000791 FtsX-like permease family; Region: FtsX; pfam02687 1166018000792 FtsX-like permease family; Region: FtsX; pfam02687 1166018000793 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000794 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000795 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000796 FtsX-like permease family; Region: FtsX; pfam02687 1166018000797 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000798 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018000799 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000800 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1166018000801 GAF domain; Region: GAF_2; pfam13185 1166018000802 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 1166018000803 Cysteine-rich domain; Region: CCG; pfam02754 1166018000804 Cysteine-rich domain; Region: CCG; pfam02754 1166018000805 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1166018000806 4Fe-4S binding domain; Region: Fer4_3; pfam12798 1166018000807 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 1166018000808 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 1166018000809 dimer interface [polypeptide binding]; other site 1166018000810 active site 1166018000811 Low affinity iron permease; Region: Iron_permease; pfam04120 1166018000812 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1166018000813 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018000814 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018000815 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018000816 Outer membrane efflux protein; Region: OEP; pfam02321 1166018000817 Outer membrane efflux protein; Region: OEP; pfam02321 1166018000818 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1166018000819 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018000820 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1166018000821 FtsX-like permease family; Region: FtsX; pfam02687 1166018000822 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018000823 Coenzyme A binding pocket [chemical binding]; other site 1166018000824 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1166018000825 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; cl17708 1166018000826 domain interfaces; other site 1166018000827 active site 1166018000828 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 1166018000829 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1166018000830 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1166018000831 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1166018000832 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 1166018000833 purine monophosphate binding site [chemical binding]; other site 1166018000834 dimer interface [polypeptide binding]; other site 1166018000835 putative catalytic residues [active] 1166018000836 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1166018000837 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1166018000838 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1166018000839 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1166018000840 putative acyl-acceptor binding pocket; other site 1166018000841 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1166018000842 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1166018000843 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1166018000844 Walker A/P-loop; other site 1166018000845 ATP binding site [chemical binding]; other site 1166018000846 Q-loop/lid; other site 1166018000847 ABC transporter signature motif; other site 1166018000848 Walker B; other site 1166018000849 D-loop; other site 1166018000850 H-loop/switch region; other site 1166018000851 ABC transporter; Region: ABC_tran_2; pfam12848 1166018000852 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1166018000853 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1166018000854 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1166018000855 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1166018000856 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018000857 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018000858 Protein of unknown function (DUF952); Region: DUF952; pfam06108 1166018000859 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1166018000860 YtxH-like protein; Region: YtxH; pfam12732 1166018000861 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018000862 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 1166018000863 HEAT repeats; Region: HEAT_2; pfam13646 1166018000864 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1166018000865 Cytochrome c; Region: Cytochrom_C; pfam00034 1166018000866 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1166018000867 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 1166018000868 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018000869 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 1166018000870 active site 1166018000871 metal binding site [ion binding]; metal-binding site 1166018000872 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 1166018000873 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1166018000874 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 1166018000875 Subunit I/III interface [polypeptide binding]; other site 1166018000876 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 1166018000877 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 1166018000878 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 1166018000879 putative trimer interface [polypeptide binding]; other site 1166018000880 putative CoA binding site [chemical binding]; other site 1166018000881 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 1166018000882 DNA polymerase III subunit delta'; Validated; Region: PRK05564 1166018000883 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1166018000884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018000885 TIGR01777 family protein; Region: yfcH 1166018000886 NAD(P) binding site [chemical binding]; other site 1166018000887 active site 1166018000888 thymidine kinase; Provisional; Region: PRK04296 1166018000889 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1166018000890 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1166018000891 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018000892 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1166018000893 SelR domain; Region: SelR; pfam01641 1166018000894 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018000895 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018000896 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1166018000897 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1166018000898 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1166018000899 DNA binding residues [nucleotide binding] 1166018000900 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018000901 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018000902 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018000903 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018000904 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018000905 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018000906 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1166018000907 active site 1166018000908 catalytic residues [active] 1166018000909 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1166018000910 Carbohydrate Binding Module 6 (CBM6); appended to glycoside hydrolase (GH) domains, including GH5 (cellulase); Region: CBM6_cellulase-like; cd04080 1166018000911 Ca binding site [ion binding]; other site 1166018000912 ligand binding site I [chemical binding]; other site 1166018000913 homodimer interface [polypeptide binding]; other site 1166018000914 ligand binding site II [chemical binding]; other site 1166018000915 Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an...; Region: Fascin; cl00187 1166018000916 PKC phosphorylation site [posttranslational modification]; other site 1166018000917 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018000918 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1166018000919 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 1166018000920 putative metal binding site [ion binding]; other site 1166018000921 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1166018000922 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1166018000923 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 1166018000924 S-adenosylmethionine binding site [chemical binding]; other site 1166018000925 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1166018000926 hypothetical protein; Provisional; Region: PRK00955 1166018000927 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1166018000928 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 1166018000929 ABC-ATPase subunit interface; other site 1166018000930 putative PBP binding loops; other site 1166018000931 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018000932 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 1166018000933 nucleoside/Zn binding site; other site 1166018000934 dimer interface [polypeptide binding]; other site 1166018000935 catalytic motif [active] 1166018000936 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1166018000937 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1166018000938 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1166018000939 Protein of unknown function (DUF422); Region: DUF422; cl00991 1166018000940 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1166018000941 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1166018000942 DNA binding residues [nucleotide binding] 1166018000943 B12 binding domain; Region: B12-binding_2; pfam02607 1166018000944 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1166018000945 elongation factor G; Reviewed; Region: PRK12739 1166018000946 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1166018000947 G1 box; other site 1166018000948 putative GEF interaction site [polypeptide binding]; other site 1166018000949 GTP/Mg2+ binding site [chemical binding]; other site 1166018000950 Switch I region; other site 1166018000951 G2 box; other site 1166018000952 G3 box; other site 1166018000953 Switch II region; other site 1166018000954 G4 box; other site 1166018000955 G5 box; other site 1166018000956 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 1166018000957 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 1166018000958 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 1166018000959 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 1166018000960 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1166018000961 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 1166018000962 putative DNA binding site [nucleotide binding]; other site 1166018000963 putative Zn2+ binding site [ion binding]; other site 1166018000964 AsnC family; Region: AsnC_trans_reg; pfam01037 1166018000965 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 1166018000966 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 1166018000967 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 1166018000968 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018000969 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1166018000970 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018000971 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018000972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1166018000973 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1166018000974 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional; Region: PRK13371 1166018000975 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 1166018000976 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1166018000977 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 1166018000978 PA/protease or protease-like domain interface [polypeptide binding]; other site 1166018000979 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1166018000980 Peptidase family M28; Region: Peptidase_M28; pfam04389 1166018000981 metal binding site [ion binding]; metal-binding site 1166018000982 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1166018000983 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 1166018000984 putative active site [active] 1166018000985 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 1166018000986 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1166018000987 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 1166018000988 ATP binding site [chemical binding]; other site 1166018000989 putative Mg++ binding site [ion binding]; other site 1166018000990 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 1166018000991 nucleotide binding region [chemical binding]; other site 1166018000992 ATP-binding site [chemical binding]; other site 1166018000993 RQC domain; Region: RQC; pfam09382 1166018000994 HRDC domain; Region: HRDC; pfam00570 1166018000995 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1166018000996 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1166018000997 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1166018000998 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1166018000999 PSP1 C-terminal conserved region; Region: PSP1; cl00770 1166018001000 PAS fold; Region: PAS_4; pfam08448 1166018001001 PAS fold; Region: PAS_4; pfam08448 1166018001002 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 1166018001003 dimer interface [polypeptide binding]; other site 1166018001004 phosphorylation site [posttranslational modification] 1166018001005 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 1166018001006 ATP binding site [chemical binding]; other site 1166018001007 Mg2+ binding site [ion binding]; other site 1166018001008 G-X-G motif; other site 1166018001009 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; cl17299 1166018001010 heme binding pocket [chemical binding]; other site 1166018001011 heme ligand [chemical binding]; other site 1166018001012 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018001013 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 1166018001014 active site 1166018001015 phosphorylation site [posttranslational modification] 1166018001016 intermolecular recognition site; other site 1166018001017 dimerization interface [polypeptide binding]; other site 1166018001018 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1166018001019 GAF domain; Region: GAF; pfam01590 1166018001020 Phytochrome region; Region: PHY; pfam00360 1166018001021 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 1166018001022 dimer interface [polypeptide binding]; other site 1166018001023 phosphorylation site [posttranslational modification] 1166018001024 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 1166018001025 ATP binding site [chemical binding]; other site 1166018001026 Mg2+ binding site [ion binding]; other site 1166018001027 G-X-G motif; other site 1166018001028 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1166018001029 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1166018001030 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 1166018001031 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 1166018001032 CoenzymeA binding site [chemical binding]; other site 1166018001033 subunit interaction site [polypeptide binding]; other site 1166018001034 PHB binding site; other site 1166018001035 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1166018001036 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1166018001037 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1166018001038 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1166018001039 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1166018001040 MerC mercury resistance protein; Region: MerC; pfam03203 1166018001041 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018001042 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018001043 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018001044 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018001045 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018001046 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018001047 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1166018001048 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1166018001049 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1166018001050 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1166018001051 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 1166018001052 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018001053 active site 1166018001054 phosphorylation site [posttranslational modification] 1166018001055 intermolecular recognition site; other site 1166018001056 dimerization interface [polypeptide binding]; other site 1166018001057 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1166018001058 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1166018001059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 1166018001060 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018001061 Protein of unknown function (DUF419); Region: DUF419; pfam04237 1166018001062 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 1166018001063 apolar tunnel; other site 1166018001064 heme binding site [chemical binding]; other site 1166018001065 dimerization interface [polypeptide binding]; other site 1166018001066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018001067 NAD(P) binding site [chemical binding]; other site 1166018001068 active site 1166018001069 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1166018001070 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018001071 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018001072 short chain dehydrogenase; Provisional; Region: PRK08263 1166018001073 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1166018001074 NADP binding site [chemical binding]; other site 1166018001075 active site 1166018001076 steroid binding site; other site 1166018001077 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 1166018001078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018001079 NAD(P) binding site [chemical binding]; other site 1166018001080 active site 1166018001081 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018001082 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 1166018001083 binding surface 1166018001084 TPR motif; other site 1166018001085 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018001086 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018001087 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 1166018001088 binding surface 1166018001089 TPR motif; other site 1166018001090 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018001091 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018001092 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1166018001093 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 1166018001094 N-terminal plug; other site 1166018001095 ligand-binding site [chemical binding]; other site 1166018001096 Phytase; Region: Phytase; cl17685 1166018001097 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018001098 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1166018001099 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 1166018001100 HEAT repeats; Region: HEAT_2; pfam13646 1166018001101 Family description; Region: VCBS; pfam13517 1166018001102 Family description; Region: VCBS; pfam13517 1166018001103 Family description; Region: VCBS; pfam13517 1166018001104 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1166018001105 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018001106 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 1166018001107 active site 1166018001108 phosphorylation site [posttranslational modification] 1166018001109 intermolecular recognition site; other site 1166018001110 dimerization interface [polypeptide binding]; other site 1166018001111 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 1166018001112 DNA binding site [nucleotide binding] 1166018001113 HAMP domain; Region: HAMP; pfam00672 1166018001114 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018001115 dimerization interface [polypeptide binding]; other site 1166018001116 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 1166018001117 dimer interface [polypeptide binding]; other site 1166018001118 phosphorylation site [posttranslational modification] 1166018001119 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 1166018001120 ATP binding site [chemical binding]; other site 1166018001121 Mg2+ binding site [ion binding]; other site 1166018001122 G-X-G motif; other site 1166018001123 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 1166018001124 putative catalytic site [active] 1166018001125 putative metal binding site [ion binding]; other site 1166018001126 putative phosphate binding site [ion binding]; other site 1166018001127 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 1166018001128 active site 1166018001129 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1166018001130 catalytic tetrad [active] 1166018001131 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 1166018001132 putative active site [active] 1166018001133 transaldolase; Provisional; Region: PRK03903 1166018001134 catalytic residue [active] 1166018001135 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1166018001136 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 1166018001137 TPP-binding site [chemical binding]; other site 1166018001138 dimer interface [polypeptide binding]; other site 1166018001139 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 1166018001140 PYR/PP interface [polypeptide binding]; other site 1166018001141 dimer interface [polypeptide binding]; other site 1166018001142 TPP binding site [chemical binding]; other site 1166018001143 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1166018001144 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 1166018001145 active site 1166018001146 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1166018001147 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1166018001148 G1 box; other site 1166018001149 GTP/Mg2+ binding site [chemical binding]; other site 1166018001150 Switch I region; other site 1166018001151 G2 box; other site 1166018001152 G3 box; other site 1166018001153 Switch II region; other site 1166018001154 G4 box; other site 1166018001155 G5 box; other site 1166018001156 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1166018001157 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1166018001158 putative active site [active] 1166018001159 catalytic triad [active] 1166018001160 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1166018001161 putative chaperone; Provisional; Region: PRK11678 1166018001162 nucleotide binding site [chemical binding]; other site 1166018001163 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1166018001164 SBD interface [polypeptide binding]; other site 1166018001165 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1166018001166 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1166018001167 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1166018001168 ABC transporter; Region: ABC_tran_2; pfam12848 1166018001169 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1166018001170 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 1166018001171 active site 1166018001172 DNA binding site [nucleotide binding] 1166018001173 Int/Topo IB signature motif; other site 1166018001174 Helix-turn-helix domain; Region: HTH_17; cl17695 1166018001175 D5 N terminal like; Region: D5_N; pfam08706 1166018001176 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1166018001177 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1166018001178 Mu-like prophage protein [General function prediction only]; Region: COG3941 1166018001179 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1166018001180 YopX protein; Region: YopX; cl09859 1166018001181 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1166018001182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018001183 NAD(P) binding site [chemical binding]; other site 1166018001184 active site 1166018001185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018001186 active site 1166018001187 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1166018001188 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018001189 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018001190 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1166018001191 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1166018001192 RibD C-terminal domain; Region: RibD_C; cl17279 1166018001193 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1166018001194 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1166018001195 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018001196 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 1166018001197 dimer interface [polypeptide binding]; other site 1166018001198 phosphorylation site [posttranslational modification] 1166018001199 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 1166018001200 ATP binding site [chemical binding]; other site 1166018001201 Mg2+ binding site [ion binding]; other site 1166018001202 G-X-G motif; other site 1166018001203 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 1166018001204 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018001205 FtsX-like permease family; Region: FtsX; pfam02687 1166018001206 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018001207 FtsX-like permease family; Region: FtsX; pfam02687 1166018001208 Predicted transcriptional regulators [Transcription]; Region: COG1695 1166018001209 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1166018001210 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1166018001211 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 1166018001212 active site triad [active] 1166018001213 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1166018001214 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1166018001215 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 1166018001216 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1166018001217 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1166018001218 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1166018001219 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1166018001220 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1166018001221 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1166018001222 active site 1166018001223 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1166018001224 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 1166018001225 KR domain; Region: KR; pfam08659 1166018001226 putative NADP binding site [chemical binding]; other site 1166018001227 active site 1166018001228 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1166018001229 Family description; Region: VCBS; pfam13517 1166018001230 Family description; Region: VCBS; pfam13517 1166018001231 Family description; Region: VCBS; pfam13517 1166018001232 Family description; Region: VCBS; pfam13517 1166018001233 Family description; Region: VCBS; pfam13517 1166018001234 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1166018001235 Cadherin repeat-like domain; Region: CA_like; cl15786 1166018001236 Ca2+ binding site [ion binding]; other site 1166018001237 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 1166018001238 binding surface 1166018001239 TPR motif; other site 1166018001240 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018001241 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1166018001242 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 1166018001243 putative substrate binding site [chemical binding]; other site 1166018001244 putative ATP binding site [chemical binding]; other site 1166018001245 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1166018001246 Zn2+ binding site [ion binding]; other site 1166018001247 Mg2+ binding site [ion binding]; other site 1166018001248 AAA domain; Region: AAA_33; pfam13671 1166018001249 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1166018001250 active site 1166018001251 RNA ligase; Region: RNA_ligase; pfam09414 1166018001252 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 1166018001253 dimerization interface [polypeptide binding]; other site 1166018001254 putative active cleft [active] 1166018001255 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1166018001256 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 1166018001257 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1166018001258 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1166018001259 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 1166018001260 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 1166018001261 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1166018001262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 1166018001263 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 1166018001264 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1166018001265 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1166018001266 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1166018001267 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 1166018001268 dimer interface [polypeptide binding]; other site 1166018001269 putative anticodon binding site; other site 1166018001270 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 1166018001271 motif 1; other site 1166018001272 active site 1166018001273 motif 2; other site 1166018001274 motif 3; other site 1166018001275 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...; Region: CSP_CDS; cd04458 1166018001276 DNA-binding site [nucleotide binding]; DNA binding site 1166018001277 RNA-binding motif; other site 1166018001278 PspC domain; Region: PspC; cl00864 1166018001279 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 1166018001280 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1166018001281 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1166018001282 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018001283 catalytic residue [active] 1166018001284 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018001285 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 1166018001286 dimer interface [polypeptide binding]; other site 1166018001287 phosphorylation site [posttranslational modification] 1166018001288 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 1166018001289 ATP binding site [chemical binding]; other site 1166018001290 Mg2+ binding site [ion binding]; other site 1166018001291 G-X-G motif; other site 1166018001292 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1166018001293 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1166018001294 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1166018001295 active site 1166018001296 metal binding site [ion binding]; metal-binding site 1166018001297 6-phosphofructokinase; Provisional; Region: PRK03202 1166018001298 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1166018001299 active site 1166018001300 ADP/pyrophosphate binding site [chemical binding]; other site 1166018001301 dimerization interface [polypeptide binding]; other site 1166018001302 allosteric effector site; other site 1166018001303 fructose-1,6-bisphosphate binding site; other site 1166018001304 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1166018001305 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 1166018001306 active site 1166018001307 catalytic triad [active] 1166018001308 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018001309 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 1166018001310 active site 1166018001311 catalytic triad [active] 1166018001312 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1166018001313 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 1166018001314 FeS/SAM binding site; other site 1166018001315 HemN C-terminal domain; Region: HemN_C; pfam06969 1166018001316 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1166018001317 Transglycosylase; Region: Transgly; cl17702 1166018001318 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1166018001319 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 1166018001320 S-adenosylmethionine binding site [chemical binding]; other site 1166018001321 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1166018001322 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1166018001323 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1166018001324 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 1166018001325 Divalent cation transporter; Region: MgtE; cl00786 1166018001326 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018001327 Coenzyme A binding pocket [chemical binding]; other site 1166018001328 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1166018001329 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1166018001330 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1166018001331 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1166018001332 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018001333 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 1166018001334 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 1166018001335 GDP-Fucose binding site [chemical binding]; other site 1166018001336 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018001337 Beta-lactamase; Region: Beta-lactamase; pfam00144 1166018001338 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1166018001339 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1166018001340 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1166018001341 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 1166018001342 Walker A motif; other site 1166018001343 ATP binding site [chemical binding]; other site 1166018001344 Walker B motif; other site 1166018001345 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1166018001346 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1166018001347 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018001348 active site 1166018001349 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1166018001350 mce related protein; Region: MCE; pfam02470 1166018001351 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1166018001352 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1166018001353 Walker A/P-loop; other site 1166018001354 ATP binding site [chemical binding]; other site 1166018001355 Q-loop/lid; other site 1166018001356 ABC transporter signature motif; other site 1166018001357 Walker B; other site 1166018001358 D-loop; other site 1166018001359 H-loop/switch region; other site 1166018001360 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1166018001361 Permease; Region: Permease; pfam02405 1166018001362 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1166018001363 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018001364 Zn binding site [ion binding]; other site 1166018001365 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1166018001366 Zn binding site [ion binding]; other site 1166018001367 putative hydrolase; Provisional; Region: PRK11460 1166018001368 ribonuclease; Region: Ribonuclease; pfam00545 1166018001369 active site 1166018001370 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 1166018001371 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1166018001372 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 1166018001373 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 1166018001374 ATP binding site [chemical binding]; other site 1166018001375 putative Mg++ binding site [ion binding]; other site 1166018001376 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 1166018001377 nucleotide binding region [chemical binding]; other site 1166018001378 ATP-binding site [chemical binding]; other site 1166018001379 TRCF domain; Region: TRCF; pfam03461 1166018001380 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 1166018001381 gliding motility-associated lipoprotein GldJ; Region: GldJ_short; TIGR03530 1166018001382 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 1166018001383 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1166018001384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1166018001385 active site 1166018001386 Centrosome microtubule-binding domain of Cep57; Region: Cep57_MT_bd; pfam06657 1166018001387 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1166018001388 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1166018001389 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1166018001390 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1166018001391 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 1166018001392 S-adenosylmethionine binding site [chemical binding]; other site 1166018001393 Bacterial Ig-like domain; Region: Big_5; pfam13205 1166018001394 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018001395 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1166018001396 threonine synthase; Validated; Region: PRK09225 1166018001397 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1166018001398 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018001399 catalytic residue [active] 1166018001400 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 1166018001401 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 1166018001402 Glutamate binding site [chemical binding]; other site 1166018001403 NAD binding site [chemical binding]; other site 1166018001404 catalytic residues [active] 1166018001405 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 1166018001406 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 1166018001407 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018001408 catalytic residues [active] 1166018001409 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1166018001410 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1166018001411 GatB domain; Region: GatB_Yqey; smart00845 1166018001412 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 1166018001413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 1166018001414 GH3 auxin-responsive promoter; Region: GH3; pfam03321 1166018001415 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1166018001416 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1166018001417 active site 1166018001418 catalytic site [active] 1166018001419 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1166018001420 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 1166018001421 substrate binding site [chemical binding]; other site 1166018001422 active site 1166018001423 catalytic residues [active] 1166018001424 heterodimer interface [polypeptide binding]; other site 1166018001425 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1166018001426 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 1166018001427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018001428 catalytic residue [active] 1166018001429 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...; Region: PRAI; cd00405 1166018001430 active site 1166018001431 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 1166018001432 active site 1166018001433 ribulose/triose binding site [chemical binding]; other site 1166018001434 phosphate binding site [ion binding]; other site 1166018001435 substrate (anthranilate) binding pocket [chemical binding]; other site 1166018001436 product (indole) binding pocket [chemical binding]; other site 1166018001437 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1166018001438 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1166018001439 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1166018001440 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1166018001441 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1166018001442 glutamine binding [chemical binding]; other site 1166018001443 catalytic triad [active] 1166018001444 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1166018001445 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1166018001446 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1166018001447 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1166018001448 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_4; cd08976 1166018001449 putative DNA binding site [nucleotide binding]; other site 1166018001450 catalytic residue [active] 1166018001451 putative H2TH interface [polypeptide binding]; other site 1166018001452 putative catalytic residues [active] 1166018001453 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1166018001454 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1166018001455 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1166018001456 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1166018001457 adenylosuccinate lyase; Provisional; Region: PRK09285 1166018001458 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1166018001459 tetramer interface [polypeptide binding]; other site 1166018001460 active site 1166018001461 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 1166018001462 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...; Region: RaiA; cd00552 1166018001463 30S subunit binding site; other site 1166018001464 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 1166018001465 ATP cone domain; Region: ATP-cone; pfam03477 1166018001466 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1166018001467 active site 1166018001468 dimer interface [polypeptide binding]; other site 1166018001469 catalytic residues [active] 1166018001470 effector binding site; other site 1166018001471 R2 peptide binding site; other site 1166018001472 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1166018001473 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1166018001474 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1166018001475 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1166018001476 active site 1166018001477 HIGH motif; other site 1166018001478 nucleotide binding site [chemical binding]; other site 1166018001479 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1166018001480 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1166018001481 active site 1166018001482 KMSKS motif; other site 1166018001483 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1166018001484 tRNA binding surface [nucleotide binding]; other site 1166018001485 anticodon binding site; other site 1166018001486 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1166018001487 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1166018001488 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1166018001489 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1166018001490 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1166018001491 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1166018001492 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1166018001493 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018001494 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 1166018001495 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018001496 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1166018001497 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 1166018001498 FAD binding site [chemical binding]; other site 1166018001499 homotetramer interface [polypeptide binding]; other site 1166018001500 substrate binding pocket [chemical binding]; other site 1166018001501 catalytic base [active] 1166018001502 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1166018001503 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1166018001504 dimer interface [polypeptide binding]; other site 1166018001505 active site 1166018001506 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1166018001507 catalytic residues [active] 1166018001508 substrate binding site [chemical binding]; other site 1166018001509 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1166018001510 ApbE family; Region: ApbE; pfam02424 1166018001511 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13540 1166018001512 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018001513 Walker A/P-loop; other site 1166018001514 ATP binding site [chemical binding]; other site 1166018001515 Q-loop/lid; other site 1166018001516 ABC transporter signature motif; other site 1166018001517 Walker B; other site 1166018001518 D-loop; other site 1166018001519 H-loop/switch region; other site 1166018001520 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018001521 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018001522 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1166018001523 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018001524 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1166018001525 active site 1166018001526 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1166018001527 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 1166018001528 G1 box; other site 1166018001529 putative GEF interaction site [polypeptide binding]; other site 1166018001530 GTP/Mg2+ binding site [chemical binding]; other site 1166018001531 Switch I region; other site 1166018001532 G2 box; other site 1166018001533 G3 box; other site 1166018001534 Switch II region; other site 1166018001535 G4 box; other site 1166018001536 G5 box; other site 1166018001537 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 1166018001538 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 1166018001539 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 1166018001540 Ligand binding site; other site 1166018001541 Putative Catalytic site; other site 1166018001542 DXD motif; other site 1166018001543 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 1166018001544 MPT binding site; other site 1166018001545 trimer interface [polypeptide binding]; other site 1166018001546 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1166018001547 Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]; Region: TrpD; COG0547 1166018001548 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1166018001549 GntP family permease; Region: GntP_permease; pfam02447 1166018001550 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1166018001551 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 1166018001552 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1166018001553 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1166018001554 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1166018001555 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1166018001556 SnoaL-like domain; Region: SnoaL_3; pfam13474 1166018001557 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 1166018001558 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1166018001559 active site 1166018001560 catalytic residues [active] 1166018001561 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 1166018001562 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1166018001563 Walker A/P-loop; other site 1166018001564 ATP binding site [chemical binding]; other site 1166018001565 Q-loop/lid; other site 1166018001566 ABC transporter signature motif; other site 1166018001567 Walker B; other site 1166018001568 D-loop; other site 1166018001569 H-loop/switch region; other site 1166018001570 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1166018001571 amino acid transporter; Region: 2A0306; TIGR00909 1166018001572 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1166018001573 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1166018001574 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 1166018001575 S-adenosylmethionine binding site [chemical binding]; other site 1166018001576 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1166018001577 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1166018001578 Peptidase family M23; Region: Peptidase_M23; pfam01551 1166018001579 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 1166018001580 TPR repeat; Region: TPR_11; pfam13414 1166018001581 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 1166018001582 TPR motif; other site 1166018001583 binding surface 1166018001584 Tetratricopeptide repeat; Region: TPR_9; pfam13371 1166018001585 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 1166018001586 binding surface 1166018001587 TPR motif; other site 1166018001588 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 1166018001589 TPR motif; other site 1166018001590 binding surface 1166018001591 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 1166018001592 binding surface 1166018001593 TPR motif; other site 1166018001594 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 1166018001595 binding surface 1166018001596 TPR motif; other site 1166018001597 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018001598 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018001599 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018001600 Predicted kinase [General function prediction only]; Region: COG4857; cl17281 1166018001601 Phosphotransferase enzyme family; Region: APH; pfam01636 1166018001602 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 1166018001603 active site 1166018001604 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1166018001605 oligomer interface [polypeptide binding]; other site 1166018001606 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1166018001607 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1166018001608 Walker A/P-loop; other site 1166018001609 ATP binding site [chemical binding]; other site 1166018001610 Q-loop/lid; other site 1166018001611 ABC transporter signature motif; other site 1166018001612 Walker B; other site 1166018001613 D-loop; other site 1166018001614 H-loop/switch region; other site 1166018001615 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018001616 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018001617 WHG domain; Region: WHG; pfam13305 1166018001618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 1166018001619 Isochorismatase family; Region: Isochorismatase; pfam00857 1166018001620 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1166018001621 catalytic triad [active] 1166018001622 conserved cis-peptide bond; other site 1166018001623 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1166018001624 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1166018001625 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1166018001626 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1166018001627 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1166018001628 PQQ-like domain; Region: PQQ_2; pfam13360 1166018001629 Trp docking motif [polypeptide binding]; other site 1166018001630 putative active site [active] 1166018001631 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1166018001632 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1166018001633 tropinone reductase; Provisional; Region: PRK09242 1166018001634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018001635 NAD(P) binding site [chemical binding]; other site 1166018001636 active site 1166018001637 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 1166018001638 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018001639 putative substrate translocation pore; other site 1166018001640 Trehalase; Region: Trehalase; cl17346 1166018001641 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 1166018001642 META domain; Region: META; pfam03724 1166018001643 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 1166018001644 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1166018001645 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1166018001646 Predicted membrane protein [Function unknown]; Region: COG2259 1166018001647 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1166018001648 Ligand binding site; other site 1166018001649 Putative Catalytic site; other site 1166018001650 DXD motif; other site 1166018001651 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 1166018001652 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1166018001653 DXD motif; other site 1166018001654 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1166018001655 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1166018001656 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1166018001657 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018001658 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018001659 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1166018001660 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1166018001661 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...; Region: CSP_CDS; cd04458 1166018001662 DNA-binding site [nucleotide binding]; DNA binding site 1166018001663 RNA-binding motif; other site 1166018001664 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1166018001665 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1166018001666 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 1166018001667 dimer interface [polypeptide binding]; other site 1166018001668 phosphorylation site [posttranslational modification] 1166018001669 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 1166018001670 ATP binding site [chemical binding]; other site 1166018001671 Mg2+ binding site [ion binding]; other site 1166018001672 G-X-G motif; other site 1166018001673 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 1166018001674 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1166018001675 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 1166018001676 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 1166018001677 L-aspartate oxidase; Provisional; Region: PRK06175 1166018001678 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1166018001679 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 1166018001680 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 1166018001681 putative Iron-sulfur protein interface [polypeptide binding]; other site 1166018001682 proximal heme binding site [chemical binding]; other site 1166018001683 distal heme binding site [chemical binding]; other site 1166018001684 putative dimer interface [polypeptide binding]; other site 1166018001685 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1166018001686 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1166018001687 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1166018001688 BNR repeat-like domain; Region: BNR_2; pfam13088 1166018001689 catalytic site [active] 1166018001690 Asp-box motif; other site 1166018001691 Protein of unknown function DUF72; Region: DUF72; pfam01904 1166018001692 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1166018001693 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1166018001694 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1166018001695 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 1166018001696 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1166018001697 substrate binding site [chemical binding]; other site 1166018001698 oxyanion hole (OAH) forming residues; other site 1166018001699 trimer interface [polypeptide binding]; other site 1166018001700 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1166018001701 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1166018001702 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1166018001703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018001704 NAD(P) binding site [chemical binding]; other site 1166018001705 active site 1166018001706 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1166018001707 putative active site [active] 1166018001708 putative catalytic site [active] 1166018001709 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018001710 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1166018001711 manganese transport protein MntH; Reviewed; Region: PRK00701 1166018001712 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1166018001713 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1166018001714 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1166018001715 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1166018001716 FeoA domain; Region: FeoA; pfam04023 1166018001717 Predicted permeases [General function prediction only]; Region: COG0795 1166018001718 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1166018001719 EamA-like transporter family; Region: EamA; pfam00892 1166018001720 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 1166018001721 active site 1166018001722 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018001723 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 1166018001724 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018001725 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018001726 ligand binding site [chemical binding]; other site 1166018001727 SnoaL-like domain; Region: SnoaL_2; pfam12680 1166018001728 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 1166018001729 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1166018001730 ligand binding site [chemical binding]; other site 1166018001731 flexible hinge region; other site 1166018001732 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 1166018001733 active site 1166018001734 Phosphoglycerate kinase; Region: PGK; pfam00162 1166018001735 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 1166018001736 substrate binding site [chemical binding]; other site 1166018001737 hinge regions; other site 1166018001738 ADP binding site [chemical binding]; other site 1166018001739 catalytic site [active] 1166018001740 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 1166018001741 active site 1166018001742 catalytic triad [active] 1166018001743 oxyanion hole [active] 1166018001744 DinB family; Region: DinB; cl17821 1166018001745 DinB superfamily; Region: DinB_2; pfam12867 1166018001746 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1166018001747 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1166018001748 catalytic site [active] 1166018001749 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 1166018001750 homotrimer interaction site [polypeptide binding]; other site 1166018001751 putative active site [active] 1166018001752 Secreted protein containing C-terminal beta-propeller domain distantly related to WD-40 repeats [General function prediction only]; Region: COG4880 1166018001753 Uncharacterized conserved protein [Function unknown]; Region: COG5276 1166018001754 META domain; Region: META; pfam03724 1166018001755 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 1166018001756 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1166018001757 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018001758 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 1166018001759 DNA binding residues [nucleotide binding] 1166018001760 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 1166018001761 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 1166018001762 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 1166018001763 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1166018001764 nucleotide binding site/active site [active] 1166018001765 HIT family signature motif; other site 1166018001766 catalytic residue [active] 1166018001767 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1166018001768 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1166018001769 FAD binding pocket [chemical binding]; other site 1166018001770 FAD binding motif [chemical binding]; other site 1166018001771 phosphate binding motif [ion binding]; other site 1166018001772 beta-alpha-beta structure motif; other site 1166018001773 NAD(p) ribose binding residues [chemical binding]; other site 1166018001774 NAD binding pocket [chemical binding]; other site 1166018001775 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1166018001776 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 1166018001777 catalytic loop [active] 1166018001778 iron binding site [ion binding]; other site 1166018001779 Cadherin repeat-like domain; Region: CA_like; cl15786 1166018001780 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1166018001781 Ca2+ binding site [ion binding]; other site 1166018001782 Cadherin repeat-like domain; Region: CA_like; cl15786 1166018001783 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1166018001784 Ca2+ binding site [ion binding]; other site 1166018001785 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1166018001786 Cadherin repeat-like domain; Region: CA_like; cl15786 1166018001787 Cadherin repeat-like domain; Region: CA_like; cl15786 1166018001788 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1166018001789 Ca2+ binding site [ion binding]; other site 1166018001790 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1166018001791 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 1166018001792 thiamine monophosphate kinase; Provisional; Region: PRK05731 1166018001793 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 1166018001794 ATP binding site [chemical binding]; other site 1166018001795 dimerization interface [polypeptide binding]; other site 1166018001796 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 1166018001797 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1166018001798 trimer interface [polypeptide binding]; other site 1166018001799 putative metal binding site [ion binding]; other site 1166018001800 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1166018001801 MG2 domain; Region: A2M_N; pfam01835 1166018001802 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1166018001803 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1166018001804 surface patch; other site 1166018001805 thioester region; other site 1166018001806 specificity defining residues; other site 1166018001807 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1166018001808 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1166018001809 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018001810 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1166018001811 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 1166018001812 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1166018001813 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1166018001814 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 1166018001815 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1166018001816 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 1166018001817 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1166018001818 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1166018001819 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1166018001820 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018001821 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018001822 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018001823 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018001824 ligand binding site [chemical binding]; other site 1166018001825 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1166018001826 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1166018001827 Tetramer interface [polypeptide binding]; other site 1166018001828 active site 1166018001829 FMN-binding site [chemical binding]; other site 1166018001830 Oxygen tolerance; Region: BatD; pfam13584 1166018001831 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 1166018001832 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 1166018001833 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 1166018001834 nucleotide binding region [chemical binding]; other site 1166018001835 ATP-binding site [chemical binding]; other site 1166018001836 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1166018001837 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018001838 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 1166018001839 ribonuclease R; Region: RNase_R; TIGR02063 1166018001840 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 1166018001841 RNB domain; Region: RNB; pfam00773 1166018001842 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...; Region: S1_RNase_R; cd04471 1166018001843 RNA binding site [nucleotide binding]; other site 1166018001844 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1166018001845 Divergent AAA domain; Region: AAA_4; pfam04326 1166018001846 beta-carotene hydroxylase; Region: PLN02601 1166018001847 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1166018001848 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1166018001849 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1166018001850 Ligand binding site; other site 1166018001851 Putative Catalytic site; other site 1166018001852 DXD motif; other site 1166018001853 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 1166018001854 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1166018001855 active site 1166018001856 catalytic tetrad [active] 1166018001857 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1166018001858 active site 1166018001859 iron coordination sites [ion binding]; other site 1166018001860 substrate binding pocket [chemical binding]; other site 1166018001861 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 1166018001862 CARDB; Region: CARDB; pfam07705 1166018001863 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1166018001864 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1166018001865 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1166018001866 dimerization interface [polypeptide binding]; other site 1166018001867 active site 1166018001868 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018001869 hypothetical protein; Validated; Region: PRK00153 1166018001870 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1166018001871 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1166018001872 Probable Catalytic site; other site 1166018001873 metal-binding site 1166018001874 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1166018001875 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1166018001876 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018001877 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 1166018001878 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 1166018001879 DNA binding residues [nucleotide binding] 1166018001880 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 1166018001881 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1166018001882 iron-sulfur cluster [ion binding]; other site 1166018001883 [2Fe-2S] cluster binding site [ion binding]; other site 1166018001884 YceI-like domain; Region: YceI; pfam04264 1166018001885 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 1166018001886 Active site serine [active] 1166018001887 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1166018001888 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 1166018001889 active site 1166018001890 substrate binding site [chemical binding]; other site 1166018001891 coenzyme B12 binding site [chemical binding]; other site 1166018001892 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 1166018001893 B12 binding site [chemical binding]; other site 1166018001894 cobalt ligand [ion binding]; other site 1166018001895 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1166018001896 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1166018001897 active site 1166018001898 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1166018001899 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 1166018001900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1166018001901 Coenzyme A binding pocket [chemical binding]; other site 1166018001902 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 1166018001903 PAS domain S-box; Region: sensory_box; TIGR00229 1166018001904 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 1166018001905 putative active site [active] 1166018001906 heme pocket [chemical binding]; other site 1166018001907 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 1166018001908 dimer interface [polypeptide binding]; other site 1166018001909 phosphorylation site [posttranslational modification] 1166018001910 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 1166018001911 ATP binding site [chemical binding]; other site 1166018001912 Mg2+ binding site [ion binding]; other site 1166018001913 G-X-G motif; other site 1166018001914 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 1166018001915 tetramer interface [polypeptide binding]; other site 1166018001916 dimer interface [polypeptide binding]; other site 1166018001917 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 1166018001918 tetramer interface [polypeptide binding]; other site 1166018001919 dimer interface [polypeptide binding]; other site 1166018001920 circadian clock protein KaiC; Reviewed; Region: PRK09302 1166018001921 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1166018001922 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1166018001923 Walker A motif; other site 1166018001924 Walker A motif; other site 1166018001925 ATP binding site [chemical binding]; other site 1166018001926 Walker B motif; other site 1166018001927 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1166018001928 Walker A motif; other site 1166018001929 ATP binding site [chemical binding]; other site 1166018001930 Walker B motif; other site 1166018001931 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1166018001932 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1166018001933 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1166018001934 active site 1166018001935 Class I aldolases; Region: Aldolase_Class_I; cl17187 1166018001936 catalytic residue [active] 1166018001937 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1166018001938 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 1166018001939 folate binding site [chemical binding]; other site 1166018001940 NADP+ binding site [chemical binding]; other site 1166018001941 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1166018001942 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1166018001943 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1166018001944 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1166018001945 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1166018001946 putative active site [active] 1166018001947 substrate binding site [chemical binding]; other site 1166018001948 putative cosubstrate binding site; other site 1166018001949 catalytic site [active] 1166018001950 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1166018001951 substrate binding site [chemical binding]; other site 1166018001952 xylose isomerase; Provisional; Region: PRK05474 1166018001953 xylose isomerase; Region: xylose_isom_A; TIGR02630 1166018001954 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 1166018001955 dimer interface [polypeptide binding]; other site 1166018001956 ADP-ribose binding site [chemical binding]; other site 1166018001957 active site 1166018001958 nudix motif; other site 1166018001959 metal binding site [ion binding]; metal-binding site 1166018001960 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018001961 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1166018001962 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1166018001963 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1166018001964 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1166018001965 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1166018001966 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1166018001967 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1166018001968 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1166018001969 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1166018001970 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018001971 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018001972 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 1166018001973 putative active site [active] 1166018001974 Zn binding site [ion binding]; other site 1166018001975 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1166018001976 Family description; Region: VCBS; pfam13517 1166018001977 Family description; Region: VCBS; pfam13517 1166018001978 Family description; Region: VCBS; pfam13517 1166018001979 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 1166018001980 FG-GAP repeat; Region: FG-GAP; pfam01839 1166018001981 Family description; Region: VCBS; pfam13517 1166018001982 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 1166018001983 S-adenosylmethionine binding site [chemical binding]; other site 1166018001984 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 1166018001985 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 1166018001986 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1166018001987 Putative esterase; Region: Esterase; pfam00756 1166018001988 Condensation domain; Region: Condensation; pfam00668 1166018001989 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1166018001990 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 1166018001991 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1166018001992 acyl-activating enzyme (AAE) consensus motif; other site 1166018001993 AMP binding site [chemical binding]; other site 1166018001994 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1166018001995 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1166018001996 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1166018001997 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1166018001998 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1166018001999 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1166018002000 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1166018002001 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 1166018002002 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1166018002003 DXD motif; other site 1166018002004 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1166018002005 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018002006 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 1166018002007 active site 1166018002008 phosphorylation site [posttranslational modification] 1166018002009 intermolecular recognition site; other site 1166018002010 dimerization interface [polypeptide binding]; other site 1166018002011 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1166018002012 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1166018002013 acyl-activating enzyme (AAE) consensus motif; other site 1166018002014 AMP binding site [chemical binding]; other site 1166018002015 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1166018002016 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1166018002017 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1166018002018 active site 1166018002019 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1166018002020 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1166018002021 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1166018002022 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 1166018002023 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 1166018002024 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018002025 catalytic residue [active] 1166018002026 DinB superfamily; Region: DinB_2; pfam12867 1166018002027 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1166018002028 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 1166018002029 trimer interface [polypeptide binding]; other site 1166018002030 active site 1166018002031 substrate binding site [chemical binding]; other site 1166018002032 CoA binding site [chemical binding]; other site 1166018002033 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: GT1_like_1; cd04950 1166018002034 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018002035 putative homodimer interface [polypeptide binding]; other site 1166018002036 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1166018002037 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1166018002038 Probable Catalytic site; other site 1166018002039 metal-binding site 1166018002040 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1166018002041 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1166018002042 DXD motif; other site 1166018002043 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 1166018002044 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1166018002045 WYL domain; Region: WYL; pfam13280 1166018002046 WGR domain; Region: WGR; cl01581 1166018002047 ADP_ribosylating enzymes catalyze the transfer of ADP_ribose from NAD+ to substrates. Bacterial toxins are cytoplasmic and catalyze the transfer of a single ADP_ribose unit to eukaryotic elongation factor 2, halting protein synthesis and killing the cell; Region: ADP_ribosyl; cl00283 1166018002048 nad+ binding pocket [chemical binding]; other site 1166018002049 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1166018002050 Active site serine [active] 1166018002051 aspartate aminotransferase; Provisional; Region: PRK05764 1166018002052 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 1166018002053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018002054 homodimer interface [polypeptide binding]; other site 1166018002055 catalytic residue [active] 1166018002056 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 1166018002057 catalytic center binding site [active] 1166018002058 ATP binding site [chemical binding]; other site 1166018002059 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 1166018002060 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1166018002061 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 1166018002062 active site 1166018002063 catalytic tetrad [active] 1166018002064 TspO/MBR family; Region: TspO_MBR; cl01379 1166018002065 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018002066 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018002067 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018002068 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1166018002069 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018002070 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018002071 ligand binding site [chemical binding]; other site 1166018002072 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018002073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018002074 Protein of unknown function (DUF664); Region: DUF664; pfam04978 1166018002075 DinB superfamily; Region: DinB_2; pfam12867 1166018002076 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 1166018002077 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1166018002078 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1166018002079 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1166018002080 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018002081 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 1166018002082 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 1166018002083 active site 1166018002084 Zn binding site [ion binding]; other site 1166018002085 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1166018002086 CDP-tyvelose 2-epimerase, extended (e) SDRs; Region: CDP_TE_SDR_e; cd05258 1166018002087 NAD binding site [chemical binding]; other site 1166018002088 homotetramer interface [polypeptide binding]; other site 1166018002089 homodimer interface [polypeptide binding]; other site 1166018002090 active site 1166018002091 substrate binding site [chemical binding]; other site 1166018002092 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 1166018002093 active site 1166018002094 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1166018002095 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1166018002096 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1166018002097 active site 1166018002098 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018002099 ligand binding site [chemical binding]; other site 1166018002100 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018002101 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1166018002102 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1166018002103 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1166018002104 active site 1166018002105 metal binding site [ion binding]; metal-binding site 1166018002106 Esterase/lipase [General function prediction only]; Region: COG1647 1166018002107 Y-family of DNA polymerases; Region: PolY; cl12025 1166018002108 active site 1166018002109 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1166018002110 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1166018002111 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 1166018002112 putative active site [active] 1166018002113 putative NTP binding site [chemical binding]; other site 1166018002114 putative nucleic acid binding site [nucleotide binding]; other site 1166018002115 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1166018002116 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1166018002117 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1166018002118 active site 1166018002119 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018002120 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1166018002121 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018002122 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018002123 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018002124 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1166018002125 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1166018002126 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1166018002127 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1166018002128 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 1166018002129 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1166018002130 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1166018002131 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 1166018002132 catalytic loop [active] 1166018002133 iron binding site [ion binding]; other site 1166018002134 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1166018002135 Protein of unknown function, DUF288; Region: DUF288; pfam03385 1166018002136 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 1166018002137 active site 1166018002138 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 1166018002139 SLBB domain; Region: SLBB; pfam10531 1166018002140 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1166018002141 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1166018002142 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 1166018002143 putative dimer interface [polypeptide binding]; other site 1166018002144 [2Fe-2S] cluster binding site [ion binding]; other site 1166018002145 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1166018002146 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1166018002147 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1166018002148 NADH dehydrogenase subunit B; Provisional; Region: PRK14820 1166018002149 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 1166018002150 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1166018002151 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018002152 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1166018002153 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018002154 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1166018002155 GTP1/OBG; Region: GTP1_OBG; pfam01018 1166018002156 Obg GTPase; Region: Obg; cd01898 1166018002157 G1 box; other site 1166018002158 GTP/Mg2+ binding site [chemical binding]; other site 1166018002159 Switch I region; other site 1166018002160 G2 box; other site 1166018002161 G3 box; other site 1166018002162 Switch II region; other site 1166018002163 G4 box; other site 1166018002164 G5 box; other site 1166018002165 adenylate kinase; Reviewed; Region: adk; PRK00279 1166018002166 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 1166018002167 AMP-binding site [chemical binding]; other site 1166018002168 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1166018002169 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 1166018002170 binding surface 1166018002171 TPR motif; other site 1166018002172 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 1166018002173 binding surface 1166018002174 TPR motif; other site 1166018002175 PBP superfamily domain; Region: PBP_like_2; pfam12849 1166018002176 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1166018002177 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1166018002178 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1166018002179 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1166018002180 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1166018002181 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1166018002182 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018002183 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018002184 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018002185 Outer membrane efflux protein; Region: OEP; pfam02321 1166018002186 Outer membrane efflux protein; Region: OEP; pfam02321 1166018002187 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 1166018002188 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1166018002189 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1166018002190 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018002191 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018002192 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1166018002193 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1166018002194 FAD binding pocket [chemical binding]; other site 1166018002195 FAD binding motif [chemical binding]; other site 1166018002196 phosphate binding motif [ion binding]; other site 1166018002197 beta-alpha-beta structure motif; other site 1166018002198 NAD(p) ribose binding residues [chemical binding]; other site 1166018002199 NAD binding pocket [chemical binding]; other site 1166018002200 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1166018002201 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 1166018002202 catalytic loop [active] 1166018002203 iron binding site [ion binding]; other site 1166018002204 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1166018002205 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018002206 Histidine kinase; Region: HisKA_3; pfam07730 1166018002207 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 1166018002208 ATP binding site [chemical binding]; other site 1166018002209 Mg2+ binding site [ion binding]; other site 1166018002210 G-X-G motif; other site 1166018002211 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1166018002212 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1166018002213 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1166018002214 SLBB domain; Region: SLBB; pfam10531 1166018002215 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1166018002216 Chain length determinant protein; Region: Wzz; cl15801 1166018002217 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1166018002218 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1166018002219 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1166018002220 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1166018002221 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1166018002222 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1166018002223 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 1166018002224 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018002225 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 1166018002226 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018002227 O-Antigen ligase; Region: Wzy_C; pfam04932 1166018002228 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 1166018002229 GDP-Fucose binding site [chemical binding]; other site 1166018002230 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1166018002231 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018002232 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 1166018002233 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 1166018002234 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1166018002235 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018002236 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1166018002237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018002238 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1166018002239 NAD(P) binding site [chemical binding]; other site 1166018002240 active site 1166018002241 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1166018002242 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1166018002243 Ligand binding site; other site 1166018002244 Putative Catalytic site; other site 1166018002245 DXD motif; other site 1166018002246 hypothetical protein; Provisional; Region: PRK08201 1166018002247 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 1166018002248 metal binding site [ion binding]; metal-binding site 1166018002249 putative dimer interface [polypeptide binding]; other site 1166018002250 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1166018002251 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1166018002252 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1166018002253 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 1166018002254 active site 1166018002255 SprT homologues; Region: SprT; cl01182 1166018002256 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 1166018002257 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 1166018002258 inhibitor-cofactor binding pocket; inhibition site 1166018002259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018002260 catalytic residue [active] 1166018002261 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 1166018002262 dimer interface [polypeptide binding]; other site 1166018002263 Citrate synthase; Region: Citrate_synt; pfam00285 1166018002264 active site 1166018002265 citrylCoA binding site [chemical binding]; other site 1166018002266 NADH binding [chemical binding]; other site 1166018002267 cationic pore residues; other site 1166018002268 oxalacetate/citrate binding site [chemical binding]; other site 1166018002269 coenzyme A binding site [chemical binding]; other site 1166018002270 catalytic triad [active] 1166018002271 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...; Region: PRAI; cd00405 1166018002272 active site 1166018002273 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1166018002274 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1166018002275 acyl carrier protein; Provisional; Region: acpP; PRK00982 1166018002276 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 1166018002277 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 1166018002278 dimerization interface [polypeptide binding]; other site 1166018002279 active site 1166018002280 metal binding site [ion binding]; metal-binding site 1166018002281 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 1166018002282 dsRNA binding site [nucleotide binding]; other site 1166018002283 recombinase A; Provisional; Region: recA; PRK09354 1166018002284 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 1166018002285 hexamer interface [polypeptide binding]; other site 1166018002286 Walker A motif; other site 1166018002287 ATP binding site [chemical binding]; other site 1166018002288 Walker B motif; other site 1166018002289 multidrug efflux protein NorA; Provisional; Region: PRK00187 1166018002290 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018002291 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1166018002292 Walker A/P-loop; other site 1166018002293 ATP binding site [chemical binding]; other site 1166018002294 Q-loop/lid; other site 1166018002295 ABC transporter signature motif; other site 1166018002296 Walker B; other site 1166018002297 D-loop; other site 1166018002298 H-loop/switch region; other site 1166018002299 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1166018002300 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1166018002301 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1166018002302 Cytochrome c; Region: Cytochrom_C; cl11414 1166018002303 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 1166018002304 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1166018002305 domain interfaces; other site 1166018002306 active site 1166018002307 Ribosomal protein L34; Region: Ribosomal_L34; pfam00468 1166018002308 ribonuclease P; Reviewed; Region: rnpA; PRK01903 1166018002309 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1166018002310 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1166018002311 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 1166018002312 protein binding site [polypeptide binding]; other site 1166018002313 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1166018002314 Catalytic dyad [active] 1166018002315 Southampton virus-type processing peptidase; Region: Peptidase_C37; pfam05416 1166018002316 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1166018002317 Glycoprotease family; Region: Peptidase_M22; pfam00814 1166018002318 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1166018002319 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1166018002320 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018002321 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018002322 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 1166018002323 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018002324 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018002325 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 1166018002326 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1166018002327 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1166018002328 N- and C-terminal domain interface [polypeptide binding]; other site 1166018002329 active site 1166018002330 catalytic site [active] 1166018002331 metal binding site [ion binding]; metal-binding site 1166018002332 carbohydrate binding site [chemical binding]; other site 1166018002333 ATP binding site [chemical binding]; other site 1166018002334 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 1166018002335 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1166018002336 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1166018002337 RNA/DNA hybrid binding site [nucleotide binding]; other site 1166018002338 active site 1166018002339 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1166018002340 Members of the SGNH-hydrolase superfamily, 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_like_7; cd04502 1166018002341 active site 1166018002342 catalytic triad [active] 1166018002343 oxyanion hole [active] 1166018002344 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018002345 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018002346 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018002347 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 1166018002348 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1166018002349 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 1166018002350 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 1166018002351 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1166018002352 AAA domain; Region: AAA_26; pfam13500 1166018002353 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 1166018002354 active site residue [active] 1166018002355 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1166018002356 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1166018002357 Beta-lactamase; Region: Beta-lactamase; cl17358 1166018002358 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018002359 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1166018002360 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1166018002361 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1166018002362 Histidine kinase; Region: HisKA_3; pfam07730 1166018002363 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1166018002364 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 1166018002365 ATP binding site [chemical binding]; other site 1166018002366 Mg2+ binding site [ion binding]; other site 1166018002367 G-X-G motif; other site 1166018002368 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 1166018002369 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 1166018002370 metal ion-dependent adhesion site (MIDAS); other site 1166018002371 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 1166018002372 metal ion-dependent adhesion site (MIDAS); other site 1166018002373 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1166018002374 Cupin domain; Region: Cupin_2; pfam07883 1166018002375 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1166018002376 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018002377 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1166018002378 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1166018002379 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1166018002380 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 1166018002381 Family description; Region: VCBS; pfam13517 1166018002382 Family description; Region: VCBS; pfam13517 1166018002383 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018002384 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1166018002385 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1166018002386 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1166018002387 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1166018002388 Members of the SGNH-hydrolase superfamily, 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_like_7; cd04502 1166018002389 active site 1166018002390 catalytic triad [active] 1166018002391 oxyanion hole [active] 1166018002392 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1166018002393 Mn-containing catalase [Inorganic ion transport and metabolism]; Region: COG3546 1166018002394 dinuclear metal binding motif [ion binding]; other site 1166018002395 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1166018002396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018002397 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1166018002398 Coenzyme A binding pocket [chemical binding]; other site 1166018002399 short chain dehydrogenase; Provisional; Region: PRK06172 1166018002400 classical (c) SDRs; Region: SDR_c; cd05233 1166018002401 NAD(P) binding site [chemical binding]; other site 1166018002402 active site 1166018002403 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1166018002404 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 1166018002405 ATP binding site [chemical binding]; other site 1166018002406 Mg++ binding site [ion binding]; other site 1166018002407 motif III; other site 1166018002408 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 1166018002409 nucleotide binding region [chemical binding]; other site 1166018002410 ATP-binding site [chemical binding]; other site 1166018002411 Melibiase; Region: Melibiase; pfam02065 1166018002412 Uncharacterized conserved protein [Function unknown]; Region: COG4279 1166018002413 SNF2 Helicase protein; Region: DUF3670; pfam12419 1166018002414 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1166018002415 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 1166018002416 ATP binding site [chemical binding]; other site 1166018002417 putative Mg++ binding site [ion binding]; other site 1166018002418 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 1166018002419 nucleotide binding region [chemical binding]; other site 1166018002420 ATP-binding site [chemical binding]; other site 1166018002421 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018002422 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1166018002423 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018002424 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018002425 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018002426 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 1166018002427 DNA binding residues [nucleotide binding] 1166018002428 phytoene desaturase; Region: crtI_fam; TIGR02734 1166018002429 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018002430 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1166018002431 active site lid residues [active] 1166018002432 substrate binding pocket [chemical binding]; other site 1166018002433 catalytic residues [active] 1166018002434 substrate-Mg2+ binding site; other site 1166018002435 aspartate-rich region 1; other site 1166018002436 aspartate-rich region 2; other site 1166018002437 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1166018002438 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1166018002439 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1166018002440 benzoate transport; Region: 2A0115; TIGR00895 1166018002441 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 1166018002442 putative substrate translocation pore; other site 1166018002443 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1166018002444 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1166018002445 Domain of unknown function DUF11; Region: DUF11; cl17728 1166018002446 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1166018002447 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1166018002448 active site 1166018002449 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1166018002450 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1166018002451 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1166018002452 translation initiation factor Sui1; Validated; Region: PRK06824 1166018002453 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1166018002454 putative rRNA binding site [nucleotide binding]; other site 1166018002455 Protein of unknown function (DUF3239); Region: DUF3239; pfam11580 1166018002456 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 1166018002457 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018002458 putative substrate translocation pore; other site 1166018002459 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 1166018002460 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 1166018002461 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018002462 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1166018002463 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 1166018002464 FeS/SAM binding site; other site 1166018002465 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1166018002466 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1166018002467 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1166018002468 A new structural DNA glycosylase; Region: AlkD_like; cd06561 1166018002469 active site 1166018002470 cell division protein FtsZ; Validated; Region: PRK09330 1166018002471 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 1166018002472 nucleotide binding site [chemical binding]; other site 1166018002473 SulA interaction site; other site 1166018002474 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1166018002475 Cell division protein FtsA; Region: FtsA; smart00842 1166018002476 Cell division protein FtsA; Region: FtsA; pfam14450 1166018002477 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1166018002478 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1166018002479 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1166018002480 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1166018002481 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 1166018002482 active site 1166018002483 homodimer interface [polypeptide binding]; other site 1166018002484 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1166018002485 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 1166018002486 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1166018002487 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1166018002488 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1166018002489 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 1166018002490 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 1166018002491 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 1166018002492 Conserved TM helix; Region: TM_helix; pfam05552 1166018002493 Conserved TM helix; Region: TM_helix; pfam05552 1166018002494 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018002495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018002496 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 1166018002497 DNA binding residues [nucleotide binding] 1166018002498 elongation factor Ts; Provisional; Region: tsf; PRK09377 1166018002499 UBA/TS-N domain; Region: UBA; pfam00627 1166018002500 Elongation factor TS; Region: EF_TS; pfam00889 1166018002501 Elongation factor TS; Region: EF_TS; pfam00889 1166018002502 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 1166018002503 rRNA interaction site [nucleotide binding]; other site 1166018002504 S8 interaction site; other site 1166018002505 putative laminin-1 binding site; other site 1166018002506 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1166018002507 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 1166018002508 23S rRNA interface [nucleotide binding]; other site 1166018002509 L3 interface [polypeptide binding]; other site 1166018002510 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018002511 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018002512 ligand binding site [chemical binding]; other site 1166018002513 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 1166018002514 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_1; cd05678 1166018002515 hypothetical protein; Provisional; Region: PRK08201 1166018002516 putative metal binding site [ion binding]; other site 1166018002517 putative dimer interface [polypeptide binding]; other site 1166018002518 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1166018002519 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1166018002520 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018002521 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1166018002522 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1166018002523 active site 1166018002524 Zn binding site [ion binding]; other site 1166018002525 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1166018002526 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 1166018002527 ATP binding site [chemical binding]; other site 1166018002528 putative Mg++ binding site [ion binding]; other site 1166018002529 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 1166018002530 nucleotide binding region [chemical binding]; other site 1166018002531 ATP-binding site [chemical binding]; other site 1166018002532 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1166018002533 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1166018002534 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1166018002535 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1166018002536 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1166018002537 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1166018002538 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1166018002539 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1166018002540 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1166018002541 active site 1166018002542 catalytic site [active] 1166018002543 substrate binding site [chemical binding]; other site 1166018002544 RecX family; Region: RecX; pfam02631 1166018002545 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 1166018002546 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1166018002547 dimer interface [polypeptide binding]; other site 1166018002548 putative radical transfer pathway; other site 1166018002549 diiron center [ion binding]; other site 1166018002550 tyrosyl radical; other site 1166018002551 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1166018002552 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 1166018002553 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1166018002554 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1166018002555 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1166018002556 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1166018002557 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1166018002558 Walker A/P-loop; other site 1166018002559 ATP binding site [chemical binding]; other site 1166018002560 Q-loop/lid; other site 1166018002561 ABC transporter signature motif; other site 1166018002562 Walker B; other site 1166018002563 D-loop; other site 1166018002564 H-loop/switch region; other site 1166018002565 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1166018002566 classical (c) SDRs; Region: SDR_c; cd05233 1166018002567 NAD(P) binding site [chemical binding]; other site 1166018002568 active site 1166018002569 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1166018002570 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1166018002571 putative phosphate acyltransferase; Provisional; Region: PRK05331 1166018002572 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1166018002573 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 1166018002574 dimer interface [polypeptide binding]; other site 1166018002575 active site 1166018002576 CoA binding pocket [chemical binding]; other site 1166018002577 elongation factor P; Validated; Region: PRK00529 1166018002578 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1166018002579 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 1166018002580 RNA binding site [nucleotide binding]; other site 1166018002581 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 1166018002582 RNA binding site [nucleotide binding]; other site 1166018002583 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1166018002584 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 1166018002585 carboxyltransferase (CT) interaction site; other site 1166018002586 biotinylation site [posttranslational modification]; other site 1166018002587 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1166018002588 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1166018002589 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1166018002590 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1166018002591 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018002592 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018002593 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1166018002594 BON domain; Region: BON; pfam04972 1166018002595 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018002596 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 1166018002597 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1166018002598 active site 1166018002599 substrate binding site [chemical binding]; other site 1166018002600 Mg2+ binding site [ion binding]; other site 1166018002601 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 1166018002602 binding surface 1166018002603 TPR motif; other site 1166018002604 TPR repeat; Region: TPR_11; pfam13414 1166018002605 PAS fold; Region: PAS_3; pfam08447 1166018002606 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1166018002607 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 1166018002608 dimer interface [polypeptide binding]; other site 1166018002609 phosphorylation site [posttranslational modification] 1166018002610 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 1166018002611 ATP binding site [chemical binding]; other site 1166018002612 Mg2+ binding site [ion binding]; other site 1166018002613 G-X-G motif; other site 1166018002614 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 1166018002615 dimer interface [polypeptide binding]; other site 1166018002616 phosphorylation site [posttranslational modification] 1166018002617 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 1166018002618 ATP binding site [chemical binding]; other site 1166018002619 Mg2+ binding site [ion binding]; other site 1166018002620 G-X-G motif; other site 1166018002621 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018002622 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 1166018002623 active site 1166018002624 phosphorylation site [posttranslational modification] 1166018002625 intermolecular recognition site; other site 1166018002626 dimerization interface [polypeptide binding]; other site 1166018002627 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 1166018002628 DNA binding site [nucleotide binding] 1166018002629 SdiA-regulated; Region: SdiA-regulated; cd09971 1166018002630 putative active site [active] 1166018002631 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1166018002632 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1166018002633 Predicted flavoprotein [General function prediction only]; Region: COG0431 1166018002634 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1166018002635 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1166018002636 GldH lipoprotein; Region: GldH_lipo; pfam14109 1166018002637 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 1166018002638 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 1166018002639 Rrf2 family protein; Region: rrf2_super; TIGR00738 1166018002640 Transcriptional regulator; Region: Rrf2; pfam02082 1166018002641 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1166018002642 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1166018002643 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1166018002644 HIGH motif; other site 1166018002645 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1166018002646 active site 1166018002647 KMSKS motif; other site 1166018002648 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 1166018002649 homotrimer interaction site [polypeptide binding]; other site 1166018002650 putative active site [active] 1166018002651 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 1166018002652 Uncharacterized conserved protein [Function unknown]; Region: COG4850 1166018002653 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 1166018002654 Family description; Region: VCBS; pfam13517 1166018002655 Family description; Region: VCBS; pfam13517 1166018002656 Family description; Region: VCBS; pfam13517 1166018002657 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 1166018002658 Family description; Region: VCBS; pfam13517 1166018002659 Family description; Region: VCBS; pfam13517 1166018002660 Family description; Region: VCBS; pfam13517 1166018002661 Family description; Region: VCBS; pfam13517 1166018002662 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 1166018002663 Family description; Region: VCBS; pfam13517 1166018002664 Family description; Region: VCBS; pfam13517 1166018002665 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018002666 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018002667 SusD family; Region: SusD; pfam07980 1166018002668 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018002669 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018002670 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018002671 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018002672 Family description; Region: VCBS; pfam13517 1166018002673 Family description; Region: VCBS; pfam13517 1166018002674 Family description; Region: VCBS; pfam13517 1166018002675 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 1166018002676 Family description; Region: VCBS; pfam13517 1166018002677 Family description; Region: VCBS; pfam13517 1166018002678 Family description; Region: VCBS; pfam13517 1166018002679 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018002680 SusD family; Region: SusD; pfam07980 1166018002681 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018002682 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018002683 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018002684 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018002685 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1166018002686 FAD binding domain; Region: FAD_binding_4; pfam01565 1166018002687 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1166018002688 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 1166018002689 Zn binding site [ion binding]; other site 1166018002690 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 1166018002691 active site 1166018002692 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1166018002693 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1166018002694 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1166018002695 Walker A/P-loop; other site 1166018002696 ATP binding site [chemical binding]; other site 1166018002697 Q-loop/lid; other site 1166018002698 ABC transporter signature motif; other site 1166018002699 Walker B; other site 1166018002700 D-loop; other site 1166018002701 H-loop/switch region; other site 1166018002702 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1166018002703 Permease; Region: Permease; pfam02405 1166018002704 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 1166018002705 oligomerization interface [polypeptide binding]; other site 1166018002706 active site 1166018002707 metal binding site [ion binding]; metal-binding site 1166018002708 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1166018002709 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1166018002710 active site 1166018002711 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018002712 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018002713 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 1166018002714 N-terminal plug; other site 1166018002715 ligand-binding site [chemical binding]; other site 1166018002716 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1166018002717 tetramerization interface [polypeptide binding]; other site 1166018002718 active site 1166018002719 YDG/SRA domain; Region: YDG_SRA; pfam02182 1166018002720 MG2 domain; Region: A2M_N; pfam01835 1166018002721 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018002722 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1166018002723 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 1166018002724 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 1166018002725 active site 1166018002726 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1166018002727 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1166018002728 putative active site [active] 1166018002729 catalytic triad [active] 1166018002730 putative dimer interface [polypeptide binding]; other site 1166018002731 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1166018002732 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1166018002733 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1166018002734 Fasciclin domain; Region: Fasciclin; pfam02469 1166018002735 DNA protecting protein DprA; Region: dprA; TIGR00732 1166018002736 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1166018002737 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1166018002738 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1166018002739 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1166018002740 NAD binding site [chemical binding]; other site 1166018002741 homodimer interface [polypeptide binding]; other site 1166018002742 active site 1166018002743 substrate binding site [chemical binding]; other site 1166018002744 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1166018002745 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1166018002746 NAD binding site [chemical binding]; other site 1166018002747 substrate binding site [chemical binding]; other site 1166018002748 homodimer interface [polypeptide binding]; other site 1166018002749 active site 1166018002750 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1166018002751 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1166018002752 substrate binding site; other site 1166018002753 tetramer interface; other site 1166018002754 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1166018002755 substrate binding site [chemical binding]; other site 1166018002756 THF binding site; other site 1166018002757 zinc-binding site [ion binding]; other site 1166018002758 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 1166018002759 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1166018002760 cation binding site [ion binding]; other site 1166018002761 multidrug efflux protein; Reviewed; Region: PRK01766 1166018002762 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1166018002763 cation binding site [ion binding]; other site 1166018002764 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1166018002765 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 1166018002766 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018002767 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 1166018002768 dimer interface [polypeptide binding]; other site 1166018002769 phosphorylation site [posttranslational modification] 1166018002770 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018002771 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 1166018002772 ATP binding site [chemical binding]; other site 1166018002773 Mg2+ binding site [ion binding]; other site 1166018002774 G-X-G motif; other site 1166018002775 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018002776 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 1166018002777 active site 1166018002778 phosphorylation site [posttranslational modification] 1166018002779 intermolecular recognition site; other site 1166018002780 dimerization interface [polypeptide binding]; other site 1166018002781 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1166018002782 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1166018002783 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1166018002784 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1166018002785 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1166018002786 putative catalytic cysteine [active] 1166018002787 BDLF3; Provisional; Region: PHA03255 1166018002788 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018002789 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018002790 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 1166018002791 active site 1166018002792 phosphorylation site [posttranslational modification] 1166018002793 intermolecular recognition site; other site 1166018002794 dimerization interface [polypeptide binding]; other site 1166018002795 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 1166018002796 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1166018002797 Walker A motif; other site 1166018002798 ATP binding site [chemical binding]; other site 1166018002799 Walker B motif; other site 1166018002800 arginine finger; other site 1166018002801 Predicted transcriptional regulator [Transcription]; Region: COG2378 1166018002802 HTH domain; Region: HTH_11; pfam08279 1166018002803 WYL domain; Region: WYL; pfam13280 1166018002804 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1166018002805 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1166018002806 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 1166018002807 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 1166018002808 ATP binding site [chemical binding]; other site 1166018002809 Mg2+ binding site [ion binding]; other site 1166018002810 G-X-G motif; other site 1166018002811 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1166018002812 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1166018002813 tRNA; other site 1166018002814 putative tRNA binding site [nucleotide binding]; other site 1166018002815 putative NADP binding site [chemical binding]; other site 1166018002816 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1166018002817 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018002818 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 1166018002819 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1166018002820 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1166018002821 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 1166018002822 Walker A/P-loop; other site 1166018002823 ATP binding site [chemical binding]; other site 1166018002824 Q-loop/lid; other site 1166018002825 ABC transporter signature motif; other site 1166018002826 Walker B; other site 1166018002827 D-loop; other site 1166018002828 H-loop/switch region; other site 1166018002829 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 1166018002830 metal binding site 2 [ion binding]; metal-binding site 1166018002831 putative DNA binding helix; other site 1166018002832 metal binding site 1 [ion binding]; metal-binding site 1166018002833 dimer interface [polypeptide binding]; other site 1166018002834 structural Zn2+ binding site [ion binding]; other site 1166018002835 MutS domain III; Region: MutS_III; pfam05192 1166018002836 PE-PPE domain; Region: PE-PPE; pfam08237 1166018002837 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018002838 Walker A/P-loop; other site 1166018002839 ATP binding site [chemical binding]; other site 1166018002840 Q-loop/lid; other site 1166018002841 ABC transporter signature motif; other site 1166018002842 Walker B; other site 1166018002843 D-loop; other site 1166018002844 H-loop/switch region; other site 1166018002845 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1166018002846 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1166018002847 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1166018002848 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1166018002849 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1166018002850 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1166018002851 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1166018002852 RF-1 domain; Region: RF-1; pfam00472 1166018002853 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018002854 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018002855 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018002856 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1166018002857 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1166018002858 NAD(P) binding site [chemical binding]; other site 1166018002859 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1166018002860 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 1166018002861 hinge; other site 1166018002862 active site 1166018002863 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 1166018002864 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1166018002865 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1166018002866 NADP binding site [chemical binding]; other site 1166018002867 active site 1166018002868 putative substrate binding site [chemical binding]; other site 1166018002869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1166018002870 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 1166018002871 binding surface 1166018002872 TPR motif; other site 1166018002873 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 1166018002874 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1166018002875 ATP binding site [chemical binding]; other site 1166018002876 Mg++ binding site [ion binding]; other site 1166018002877 motif III; other site 1166018002878 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 1166018002879 nucleotide binding region [chemical binding]; other site 1166018002880 ATP-binding site [chemical binding]; other site 1166018002881 prenyltransferase; Reviewed; Region: ubiA; PRK12872 1166018002882 UbiA prenyltransferase family; Region: UbiA; pfam01040 1166018002883 MarR family; Region: MarR_2; pfam12802 1166018002884 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1166018002885 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018002886 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018002887 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1166018002888 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 1166018002889 putative substrate translocation pore; other site 1166018002890 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 1166018002891 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1166018002892 acyl carrier protein; Provisional; Region: acpP; PRK00982 1166018002893 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018002894 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1166018002895 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018002896 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1166018002897 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1166018002898 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1166018002899 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1166018002900 putative trimer interface [polypeptide binding]; other site 1166018002901 putative CoA binding site [chemical binding]; other site 1166018002902 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1166018002903 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1166018002904 putative active site [active] 1166018002905 putative metal binding site [ion binding]; other site 1166018002906 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 1166018002907 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1166018002908 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1166018002909 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1166018002910 active site 1166018002911 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1166018002912 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 1166018002913 SmpB-tmRNA interface; other site 1166018002914 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1166018002915 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1166018002916 active site 1166018002917 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1166018002918 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1166018002919 RNA binding site [nucleotide binding]; other site 1166018002920 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...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1166018002921 RNA binding site [nucleotide binding]; other site 1166018002922 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1166018002923 RNA binding site [nucleotide binding]; other site 1166018002924 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 1166018002925 RNA binding site [nucleotide binding]; other site 1166018002926 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 1166018002927 RNA binding site [nucleotide binding]; other site 1166018002928 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1166018002929 RNA binding site [nucleotide binding]; other site 1166018002930 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1166018002931 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018002932 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1166018002933 Cytochrome c; Region: Cytochrom_C; pfam00034 1166018002934 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 1166018002935 heme-binding residues [chemical binding]; other site 1166018002936 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1166018002937 molybdopterin cofactor binding site; other site 1166018002938 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 1166018002939 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1166018002940 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 1166018002941 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 1166018002942 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 1166018002943 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1166018002944 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1166018002945 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1166018002946 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1166018002947 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 1166018002948 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1166018002949 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1166018002950 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1166018002951 UbiA prenyltransferase family; Region: UbiA; pfam01040 1166018002952 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 1166018002953 Subunit I/III interface [polypeptide binding]; other site 1166018002954 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 1166018002955 Subunit I/III interface [polypeptide binding]; other site 1166018002956 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 1166018002957 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1166018002958 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 1166018002959 Cu(I) binding site [ion binding]; other site 1166018002960 Protein of unknown function (DUF420); Region: DUF420; pfam04238 1166018002961 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018002962 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018002963 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 1166018002964 DNA binding residues [nucleotide binding] 1166018002965 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018002966 elongation factor Tu; Reviewed; Region: PRK12735 1166018002967 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1166018002968 G1 box; other site 1166018002969 GEF interaction site [polypeptide binding]; other site 1166018002970 GTP/Mg2+ binding site [chemical binding]; other site 1166018002971 Switch I region; other site 1166018002972 G2 box; other site 1166018002973 G3 box; other site 1166018002974 Switch II region; other site 1166018002975 G4 box; other site 1166018002976 G5 box; other site 1166018002977 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 1166018002978 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 1166018002979 Antibiotic Binding Site [chemical binding]; other site 1166018002980 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 1166018002981 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1166018002982 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1166018002983 putative homodimer interface [polypeptide binding]; other site 1166018002984 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1166018002985 heterodimer interface [polypeptide binding]; other site 1166018002986 homodimer interface [polypeptide binding]; other site 1166018002987 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1166018002988 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 1166018002989 23S rRNA interface [nucleotide binding]; other site 1166018002990 L7/L12 interface [polypeptide binding]; other site 1166018002991 putative thiostrepton binding site; other site 1166018002992 L25 interface [polypeptide binding]; other site 1166018002993 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 1166018002994 mRNA/rRNA interface [nucleotide binding]; other site 1166018002995 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 1166018002996 23S rRNA interface [nucleotide binding]; other site 1166018002997 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1166018002998 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 1166018002999 core dimer interface [polypeptide binding]; other site 1166018003000 peripheral dimer interface [polypeptide binding]; other site 1166018003001 L10 interface [polypeptide binding]; other site 1166018003002 L11 interface [polypeptide binding]; other site 1166018003003 putative EF-Tu interaction site [polypeptide binding]; other site 1166018003004 putative EF-G interaction site [polypeptide binding]; other site 1166018003005 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 1166018003006 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1166018003007 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1166018003008 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 1166018003009 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1166018003010 RPB12 interaction site [polypeptide binding]; other site 1166018003011 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 1166018003012 RPB12 interaction site [polypeptide binding]; other site 1166018003013 RPB3 interaction site [polypeptide binding]; other site 1166018003014 RPB1 interaction site [polypeptide binding]; other site 1166018003015 RPB11 interaction site [polypeptide binding]; other site 1166018003016 RPB10 interaction site [polypeptide binding]; other site 1166018003017 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1166018003018 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1166018003019 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1166018003020 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1166018003021 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1166018003022 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1166018003023 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1166018003024 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1166018003025 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1166018003026 DNA binding site [nucleotide binding] 1166018003027 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1166018003028 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1166018003029 glycerate dehydrogenase; Provisional; Region: PRK06487 1166018003030 NAD binding site [chemical binding]; other site 1166018003031 ligand binding site [chemical binding]; other site 1166018003032 catalytic site [active] 1166018003033 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1166018003034 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1166018003035 conserved cys residue [active] 1166018003036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018003037 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018003038 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1166018003039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018003040 NAD(P) binding site [chemical binding]; other site 1166018003041 active site 1166018003042 K+ potassium transporter; Region: K_trans; pfam02705 1166018003043 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1166018003044 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1166018003045 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1166018003046 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1166018003047 MarR family; Region: MarR_2; pfam12802 1166018003048 MarR family; Region: MarR_2; cl17246 1166018003049 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 1166018003050 cofactor binding site; other site 1166018003051 metal binding site [ion binding]; metal-binding site 1166018003052 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1166018003053 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1166018003054 dimer interface [polypeptide binding]; other site 1166018003055 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1166018003056 active site 1166018003057 Fe binding site [ion binding]; other site 1166018003058 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 1166018003059 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1166018003060 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1166018003061 metal binding site [ion binding]; metal-binding site 1166018003062 dimer interface [polypeptide binding]; other site 1166018003063 RDD family; Region: RDD; pfam06271 1166018003064 Integral membrane protein DUF95; Region: DUF95; pfam01944 1166018003065 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 1166018003066 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1166018003067 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1166018003068 MoxR-like ATPases [General function prediction only]; Region: COG0714 1166018003069 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 1166018003070 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018003071 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1166018003072 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 1166018003073 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 1166018003074 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 1166018003075 putative sugar binding sites [chemical binding]; other site 1166018003076 Q-X-W motif; other site 1166018003077 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 1166018003078 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 1166018003079 putative sugar binding sites [chemical binding]; other site 1166018003080 Q-X-W motif; other site 1166018003081 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1166018003082 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 1166018003083 PA/protease or protease-like domain interface [polypeptide binding]; other site 1166018003084 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 1166018003085 Peptidase family M28; Region: Peptidase_M28; pfam04389 1166018003086 metal binding site [ion binding]; metal-binding site 1166018003087 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1166018003088 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1166018003089 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 1166018003090 homotrimer interaction site [polypeptide binding]; other site 1166018003091 putative active site [active] 1166018003092 Protein of unknown function, DUF417; Region: DUF417; cl01162 1166018003093 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1166018003094 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1166018003095 NAD(P) binding site [chemical binding]; other site 1166018003096 homodimer interface [polypeptide binding]; other site 1166018003097 substrate binding site [chemical binding]; other site 1166018003098 active site 1166018003099 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1166018003100 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 1166018003101 inhibitor-cofactor binding pocket; inhibition site 1166018003102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018003103 catalytic residue [active] 1166018003104 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1166018003105 ligand binding site; other site 1166018003106 tetramer interface; other site 1166018003107 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1166018003108 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1166018003109 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018003110 Coenzyme A binding pocket [chemical binding]; other site 1166018003111 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1166018003112 pseudaminic acid synthase; Region: PseI; TIGR03586 1166018003113 NeuB family; Region: NeuB; pfam03102 1166018003114 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1166018003115 NeuB binding interface [polypeptide binding]; other site 1166018003116 putative substrate binding site [chemical binding]; other site 1166018003117 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1166018003118 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018003119 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 1166018003120 putative glycosyl transferase; Provisional; Region: PRK10063 1166018003121 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 1166018003122 metal-binding site 1166018003123 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018003124 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018003125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 1166018003126 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1166018003127 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1166018003128 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1166018003129 putative substrate binding site [chemical binding]; other site 1166018003130 putative ATP binding site [chemical binding]; other site 1166018003131 SlyX; Region: SlyX; cl01090 1166018003132 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018003133 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_3; cd07241 1166018003134 putative metal binding site [ion binding]; other site 1166018003135 recombination protein F; Reviewed; Region: recF; PRK00064 1166018003136 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018003137 Walker A/P-loop; other site 1166018003138 ATP binding site [chemical binding]; other site 1166018003139 Q-loop/lid; other site 1166018003140 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018003141 ABC transporter signature motif; other site 1166018003142 Walker B; other site 1166018003143 D-loop; other site 1166018003144 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1166018003145 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 1166018003146 tetramer interface [polypeptide binding]; other site 1166018003147 TPP-binding site [chemical binding]; other site 1166018003148 heterodimer interface [polypeptide binding]; other site 1166018003149 phosphorylation loop region [posttranslational modification] 1166018003150 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1166018003151 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 1166018003152 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1166018003153 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1166018003154 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1166018003155 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 1166018003156 generic binding surface II; other site 1166018003157 ssDNA binding site; other site 1166018003158 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 1166018003159 ATP binding site [chemical binding]; other site 1166018003160 putative Mg++ binding site [ion binding]; other site 1166018003161 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 1166018003162 nucleotide binding region [chemical binding]; other site 1166018003163 ATP-binding site [chemical binding]; other site 1166018003164 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 1166018003165 putative active site [active] 1166018003166 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1166018003167 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 1166018003168 putative ribose interaction site [chemical binding]; other site 1166018003169 putative ADP binding site [chemical binding]; other site 1166018003170 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 1166018003171 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1166018003172 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 1166018003173 primosomal protein N' Region: priA; TIGR00595 1166018003174 ATP binding site [chemical binding]; other site 1166018003175 putative Mg++ binding site [ion binding]; other site 1166018003176 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1166018003177 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1166018003178 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1166018003179 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1166018003180 active site 1166018003181 catalytic site [active] 1166018003182 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1166018003183 PA14 domain; Region: PA14; cl08459 1166018003184 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 1166018003185 dimer interface [polypeptide binding]; other site 1166018003186 putative tRNA-binding site [nucleotide binding]; other site 1166018003187 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1166018003188 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1166018003189 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 1166018003190 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 1166018003191 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 1166018003192 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018003193 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 1166018003194 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1166018003195 MgtC family; Region: MgtC; pfam02308 1166018003196 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1166018003197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018003198 NAD(P) binding site [chemical binding]; other site 1166018003199 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018003200 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...; Region: PNPsynthase; cd00003 1166018003201 active site 1166018003202 hydrophilic channel; other site 1166018003203 dimerization interface [polypeptide binding]; other site 1166018003204 catalytic residues [active] 1166018003205 active site lid [active] 1166018003206 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1166018003207 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1166018003208 active site residue [active] 1166018003209 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018003210 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018003211 SusD family; Region: SusD; pfam07980 1166018003212 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018003213 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018003214 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018003215 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018003216 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1166018003217 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 1166018003218 homopentamer interface [polypeptide binding]; other site 1166018003219 active site 1166018003220 aspartate kinase III; Validated; Region: PRK09084 1166018003221 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 1166018003222 putative catalytic residues [active] 1166018003223 nucleotide binding site [chemical binding]; other site 1166018003224 aspartate binding site [chemical binding]; other site 1166018003225 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 1166018003226 dimer interface [polypeptide binding]; other site 1166018003227 allosteric regulatory binding pocket; other site 1166018003228 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1166018003229 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1166018003230 active site 1166018003231 NTP binding site [chemical binding]; other site 1166018003232 metal binding triad [ion binding]; metal-binding site 1166018003233 HEPN domain; Region: HEPN; cl00824 1166018003234 seryl-tRNA synthetase; Provisional; Region: PRK05431 1166018003235 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1166018003236 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...; Region: SerRS_core; cd00770 1166018003237 dimer interface [polypeptide binding]; other site 1166018003238 active site 1166018003239 motif 1; other site 1166018003240 motif 2; other site 1166018003241 motif 3; other site 1166018003242 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1166018003243 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1166018003244 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1166018003245 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1166018003246 ABC transporter; Region: ABC_tran_2; pfam12848 1166018003247 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1166018003248 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 1166018003249 Transglycosylase; Region: Transgly; pfam00912 1166018003250 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1166018003251 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1166018003252 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1166018003253 4Fe-4S binding domain; Region: Fer4; pfam00037 1166018003254 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 1166018003255 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1166018003256 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 1166018003257 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1166018003258 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1166018003259 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1166018003260 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1166018003261 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1166018003262 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018003263 Coenzyme A binding pocket [chemical binding]; other site 1166018003264 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1166018003265 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 1166018003266 active site 1166018003267 phosphorylation site [posttranslational modification] 1166018003268 intermolecular recognition site; other site 1166018003269 dimerization interface [polypeptide binding]; other site 1166018003270 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 1166018003271 Walker A motif; other site 1166018003272 ATP binding site [chemical binding]; other site 1166018003273 Walker B motif; other site 1166018003274 arginine finger; other site 1166018003275 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1166018003276 K+ potassium transporter; Region: K_trans; pfam02705 1166018003277 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1166018003278 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1166018003279 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1166018003280 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1166018003281 K+-transporting ATPase, c chain; Region: KdpC; cl00944 1166018003282 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1166018003283 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1166018003284 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 1166018003285 Ligand Binding Site [chemical binding]; other site 1166018003286 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 1166018003287 dimerization interface [polypeptide binding]; other site 1166018003288 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 1166018003289 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018003290 putative active site [active] 1166018003291 heme pocket [chemical binding]; other site 1166018003292 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 1166018003293 dimer interface [polypeptide binding]; other site 1166018003294 phosphorylation site [posttranslational modification] 1166018003295 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 1166018003296 ATP binding site [chemical binding]; other site 1166018003297 Mg2+ binding site [ion binding]; other site 1166018003298 G-X-G motif; other site 1166018003299 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 1166018003300 active site 1166018003301 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1166018003302 FAD binding domain; Region: FAD_binding_4; pfam01565 1166018003303 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 1166018003304 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1166018003305 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1166018003306 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1166018003307 ATP-binding site [chemical binding]; other site 1166018003308 Sugar specificity; other site 1166018003309 Pyrimidine base specificity; other site 1166018003310 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1166018003311 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 1166018003312 substrate binding site [chemical binding]; other site 1166018003313 active site 1166018003314 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1166018003315 enolase; Provisional; Region: eno; PRK00077 1166018003316 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 1166018003317 dimer interface [polypeptide binding]; other site 1166018003318 metal binding site [ion binding]; metal-binding site 1166018003319 substrate binding pocket [chemical binding]; other site 1166018003320 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1166018003321 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1166018003322 active site 1166018003323 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1166018003324 phosphoglyceromutase; Provisional; Region: PRK05434 1166018003325 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018003326 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018003327 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018003328 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018003329 cysteine synthase B; Region: cysM; TIGR01138 1166018003330 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 1166018003331 dimer interface [polypeptide binding]; other site 1166018003332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018003333 catalytic residue [active] 1166018003334 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1166018003335 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 1166018003336 quinone interaction residues [chemical binding]; other site 1166018003337 active site 1166018003338 catalytic residues [active] 1166018003339 FMN binding site [chemical binding]; other site 1166018003340 substrate binding site [chemical binding]; other site 1166018003341 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 1166018003342 metal ion-dependent adhesion site (MIDAS); other site 1166018003343 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1166018003344 DHH family; Region: DHH; pfam01368 1166018003345 DHHA1 domain; Region: DHHA1; pfam02272 1166018003346 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1166018003347 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1166018003348 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1166018003349 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1166018003350 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1166018003351 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 1166018003352 active site 1166018003353 dimerization interface [polypeptide binding]; other site 1166018003354 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 1166018003355 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1166018003356 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1166018003357 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 1166018003358 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1166018003359 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1166018003360 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1166018003361 putative active site [active] 1166018003362 putative substrate binding site [chemical binding]; other site 1166018003363 putative cosubstrate binding site; other site 1166018003364 catalytic site [active] 1166018003365 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 1166018003366 Glycogen synthase; Region: Glycogen_syn; pfam05693 1166018003367 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 1166018003368 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018003369 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 1166018003370 gliding motility-associated protein GldE; Region: GldE; TIGR03520 1166018003371 Domain of unknown function DUF21; Region: DUF21; pfam01595 1166018003372 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 1166018003373 Transporter associated domain; Region: CorC_HlyC; smart01091 1166018003374 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1166018003375 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 1166018003376 dimer interface [polypeptide binding]; other site 1166018003377 ssDNA binding site [nucleotide binding]; other site 1166018003378 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1166018003379 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1166018003380 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1166018003381 minor groove reading motif; other site 1166018003382 helix-hairpin-helix signature motif; other site 1166018003383 substrate binding pocket [chemical binding]; other site 1166018003384 active site 1166018003385 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1166018003386 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 1166018003387 DNA binding and oxoG recognition site [nucleotide binding] 1166018003388 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 1166018003389 IHF - DNA interface [nucleotide binding]; other site 1166018003390 IHF dimer interface [polypeptide binding]; other site 1166018003391 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 1166018003392 binding surface 1166018003393 TPR motif; other site 1166018003394 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1166018003395 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 1166018003396 homodimer interface [polypeptide binding]; other site 1166018003397 oligonucleotide binding site [chemical binding]; other site 1166018003398 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1166018003399 GAF domain; Region: GAF_3; pfam13492 1166018003400 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018003401 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 1166018003402 ATP binding site [chemical binding]; other site 1166018003403 Mg2+ binding site [ion binding]; other site 1166018003404 G-X-G motif; other site 1166018003405 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018003406 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 1166018003407 active site 1166018003408 phosphorylation site [posttranslational modification] 1166018003409 intermolecular recognition site; other site 1166018003410 dimerization interface [polypeptide binding]; other site 1166018003411 PAS fold; Region: PAS_4; pfam08448 1166018003412 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 1166018003413 putative active site [active] 1166018003414 heme pocket [chemical binding]; other site 1166018003415 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 1166018003416 dimer interface [polypeptide binding]; other site 1166018003417 phosphorylation site [posttranslational modification] 1166018003418 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 1166018003419 ATP binding site [chemical binding]; other site 1166018003420 Mg2+ binding site [ion binding]; other site 1166018003421 G-X-G motif; other site 1166018003422 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 1166018003423 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 1166018003424 S17 interaction site [polypeptide binding]; other site 1166018003425 S8 interaction site; other site 1166018003426 16S rRNA interaction site [nucleotide binding]; other site 1166018003427 streptomycin interaction site [chemical binding]; other site 1166018003428 23S rRNA interaction site [nucleotide binding]; other site 1166018003429 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1166018003430 30S ribosomal protein S7; Validated; Region: PRK05302 1166018003431 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1166018003432 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 1166018003433 dimer interface [polypeptide binding]; other site 1166018003434 active site 1166018003435 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1166018003436 folate binding site [chemical binding]; other site 1166018003437 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1166018003438 Minimal MMP-like domain found in Thermus thermophilus TTHA0227, Acidothermus cellulolyticus ACEL2062 and similar proteins; Region: MMP_TTHA0227_like; cl01577 1166018003439 Domain of unknown function (DUF955); Region: DUF955; cl01076 1166018003440 MORN repeat; Region: MORN; cl14787 1166018003441 MORN repeat; Region: MORN; pfam02493 1166018003442 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 1166018003443 active site 1166018003444 zinc binding site [ion binding]; other site 1166018003445 Histidine kinase; Region: His_kinase; pfam06580 1166018003446 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018003447 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 1166018003448 active site 1166018003449 phosphorylation site [posttranslational modification] 1166018003450 intermolecular recognition site; other site 1166018003451 dimerization interface [polypeptide binding]; other site 1166018003452 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018003453 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 1166018003454 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 1166018003455 thiopeptide-type bacteriocin biosynthesis domain; Region: thiopep_ocin; TIGR03891 1166018003456 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 1166018003457 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 1166018003458 inhibitor-cofactor binding pocket; inhibition site 1166018003459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018003460 catalytic residue [active] 1166018003461 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1166018003462 Aspartyl protease; Region: Asp_protease_2; pfam13650 1166018003463 inhibitor binding site; inhibition site 1166018003464 catalytic motif [active] 1166018003465 Catalytic residue [active] 1166018003466 Active site flap [active] 1166018003467 Aspartyl protease; Region: Asp_protease_2; pfam13650 1166018003468 inhibitor binding site; inhibition site 1166018003469 catalytic motif [active] 1166018003470 Catalytic residue [active] 1166018003471 Active site flap [active] 1166018003472 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 1166018003473 triosephosphate isomerase; Provisional; Region: PRK14567 1166018003474 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 1166018003475 substrate binding site [chemical binding]; other site 1166018003476 dimer interface [polypeptide binding]; other site 1166018003477 catalytic triad [active] 1166018003478 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 1166018003479 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018003480 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 1166018003481 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1166018003482 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 1166018003483 putative substrate translocation pore; other site 1166018003484 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 1166018003485 putative substrate translocation pore; other site 1166018003486 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018003487 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1166018003488 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1166018003489 Carboxylesterase family; Region: COesterase; pfam00135 1166018003490 substrate binding pocket [chemical binding]; other site 1166018003491 catalytic triad [active] 1166018003492 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1166018003493 iron-sulfur cluster [ion binding]; other site 1166018003494 [2Fe-2S] cluster binding site [ion binding]; other site 1166018003495 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018003496 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 1166018003497 active site 1166018003498 phosphorylation site [posttranslational modification] 1166018003499 intermolecular recognition site; other site 1166018003500 dimerization interface [polypeptide binding]; other site 1166018003501 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1166018003502 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 1166018003503 putative active site [active] 1166018003504 heme pocket [chemical binding]; other site 1166018003505 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 1166018003506 dimer interface [polypeptide binding]; other site 1166018003507 phosphorylation site [posttranslational modification] 1166018003508 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 1166018003509 ATP binding site [chemical binding]; other site 1166018003510 Mg2+ binding site [ion binding]; other site 1166018003511 G-X-G motif; other site 1166018003512 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018003513 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 1166018003514 active site 1166018003515 phosphorylation site [posttranslational modification] 1166018003516 intermolecular recognition site; other site 1166018003517 dimerization interface [polypeptide binding]; other site 1166018003518 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018003519 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1166018003520 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 1166018003521 active site 1166018003522 phosphorylation site [posttranslational modification] 1166018003523 intermolecular recognition site; other site 1166018003524 dimerization interface [polypeptide binding]; other site 1166018003525 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 1166018003526 Walker A motif; other site 1166018003527 ATP binding site [chemical binding]; other site 1166018003528 Walker B motif; other site 1166018003529 arginine finger; other site 1166018003530 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1166018003531 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 1166018003532 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 1166018003533 active site 1166018003534 phosphorylation site [posttranslational modification] 1166018003535 intermolecular recognition site; other site 1166018003536 dimerization interface [polypeptide binding]; other site 1166018003537 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018003538 Histidine kinase; Region: His_kinase; pfam06580 1166018003539 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 1166018003540 catalytic core [active] 1166018003541 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 1166018003542 CoenzymeA binding site [chemical binding]; other site 1166018003543 subunit interaction site [polypeptide binding]; other site 1166018003544 PHB binding site; other site 1166018003545 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1166018003546 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 1166018003547 dimer interface [polypeptide binding]; other site 1166018003548 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1166018003549 catalytic triad [active] 1166018003550 peroxidatic and resolving cysteines [active] 1166018003551 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1166018003552 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1166018003553 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...; Region: CSP_CDS; cd04458 1166018003554 DNA-binding site [nucleotide binding]; DNA binding site 1166018003555 RNA-binding motif; other site 1166018003556 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018003557 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018003558 SusD family; Region: SusD; pfam07980 1166018003559 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018003560 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018003561 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018003562 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018003563 Trehalose utilisation; Region: ThuA; pfam06283 1166018003564 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018003565 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018003566 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018003567 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018003568 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018003569 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1166018003570 Protein export membrane protein; Region: SecD_SecF; cl14618 1166018003571 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018003572 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018003573 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018003574 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 1166018003575 Outer membrane efflux protein; Region: OEP; pfam02321 1166018003576 Outer membrane efflux protein; Region: OEP; pfam02321 1166018003577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018003578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018003579 WHG domain; Region: WHG; pfam13305 1166018003580 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 1166018003581 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018003582 putative catalytic residue [active] 1166018003583 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1166018003584 SurA N-terminal domain; Region: SurA_N_3; cl07813 1166018003585 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1166018003586 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 1166018003587 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1166018003588 nucleotide binding site [chemical binding]; other site 1166018003589 substrate binding site [chemical binding]; other site 1166018003590 PUA domain; Region: PUA; pfam01472 1166018003591 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1166018003592 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1166018003593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018003594 Coenzyme A binding pocket [chemical binding]; other site 1166018003595 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1166018003596 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1166018003597 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1166018003598 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1166018003599 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018003600 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018003601 carboxy-terminal protease; Provisional; Region: PRK11186 1166018003602 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 1166018003603 protein binding site [polypeptide binding]; other site 1166018003604 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1166018003605 Catalytic dyad [active] 1166018003606 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1166018003607 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1166018003608 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1166018003609 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1166018003610 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1166018003611 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 1166018003612 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1166018003613 Peptidase family M28; Region: Peptidase_M28; pfam04389 1166018003614 metal binding site [ion binding]; metal-binding site 1166018003615 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1166018003616 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018003617 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 1166018003618 DNA binding residues [nucleotide binding] 1166018003619 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 1166018003620 dimer interface [polypeptide binding]; other site 1166018003621 [2Fe-2S] cluster binding site [ion binding]; other site 1166018003622 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 1166018003623 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 1166018003624 motif II; other site 1166018003625 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1166018003626 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1166018003627 NAD binding site [chemical binding]; other site 1166018003628 homodimer interface [polypeptide binding]; other site 1166018003629 homotetramer interface [polypeptide binding]; other site 1166018003630 active site 1166018003631 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 1166018003632 Peptidase S46; Region: Peptidase_S46; pfam10459 1166018003633 Peptidase S7, Flavivirus NS3 serine protease; Region: Peptidase_S7; pfam00949 1166018003634 mercuric reductase; Validated; Region: PRK06370 1166018003635 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1166018003636 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1166018003637 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1166018003638 Protein of unknown function (DUF664); Region: DUF664; pfam04978 1166018003639 DinB superfamily; Region: DinB_2; pfam12867 1166018003640 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018003641 Beta-lactamase; Region: Beta-lactamase; pfam00144 1166018003642 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1166018003643 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...; Region: LT_GEWL; cd00254 1166018003644 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1166018003645 catalytic residue [active] 1166018003646 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 1166018003647 active site 1166018003648 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018003649 Domain of unknown function DUF11; Region: DUF11; cl17728 1166018003650 Amino acid permease; Region: AA_permease_2; pfam13520 1166018003651 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 1166018003652 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1166018003653 Peptidase family M23; Region: Peptidase_M23; pfam01551 1166018003654 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1166018003655 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1166018003656 Histidine kinase; Region: His_kinase; pfam06580 1166018003657 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018003658 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 1166018003659 DNA binding residues [nucleotide binding] 1166018003660 dimerization interface [polypeptide binding]; other site 1166018003661 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018003662 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018003663 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 1166018003664 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 1166018003665 YcaO-like family; Region: YcaO; pfam02624 1166018003666 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 1166018003667 putative FMN binding site [chemical binding]; other site 1166018003668 NADPH bind site [chemical binding]; other site 1166018003669 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 1166018003670 active site 1166018003671 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1166018003672 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 1166018003673 Walker A motif; other site 1166018003674 ATP binding site [chemical binding]; other site 1166018003675 Walker B motif; other site 1166018003676 arginine finger; other site 1166018003677 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 1166018003678 Walker A motif; other site 1166018003679 ATP binding site [chemical binding]; other site 1166018003680 Walker B motif; other site 1166018003681 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1166018003682 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 1166018003683 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 1166018003684 active site 1166018003685 phosphorylation site [posttranslational modification] 1166018003686 intermolecular recognition site; other site 1166018003687 dimerization interface [polypeptide binding]; other site 1166018003688 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018003689 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 1166018003690 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 1166018003691 thiopeptide-type bacteriocin biosynthesis domain; Region: thiopep_ocin; TIGR03891 1166018003692 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1166018003693 core domain interface [polypeptide binding]; other site 1166018003694 delta subunit interface [polypeptide binding]; other site 1166018003695 epsilon subunit interface [polypeptide binding]; other site 1166018003696 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1166018003697 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1166018003698 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 1166018003699 beta subunit interaction interface [polypeptide binding]; other site 1166018003700 Walker A motif; other site 1166018003701 ATP binding site [chemical binding]; other site 1166018003702 Walker B motif; other site 1166018003703 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1166018003704 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1166018003705 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018003706 Coenzyme A binding pocket [chemical binding]; other site 1166018003707 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1166018003708 Secretory lipase; Region: LIP; pfam03583 1166018003709 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 1166018003710 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1166018003711 active site 1166018003712 substrate binding site [chemical binding]; other site 1166018003713 cosubstrate binding site; other site 1166018003714 catalytic site [active] 1166018003715 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1166018003716 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1166018003717 Walker A/P-loop; other site 1166018003718 ATP binding site [chemical binding]; other site 1166018003719 Q-loop/lid; other site 1166018003720 ABC transporter signature motif; other site 1166018003721 Walker B; other site 1166018003722 D-loop; other site 1166018003723 H-loop/switch region; other site 1166018003724 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1166018003725 active site 1166018003726 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1166018003727 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1166018003728 NADP binding site [chemical binding]; other site 1166018003729 active site 1166018003730 putative substrate binding site [chemical binding]; other site 1166018003731 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1166018003732 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 1166018003733 dimer interface [polypeptide binding]; other site 1166018003734 phosphorylation site [posttranslational modification] 1166018003735 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 1166018003736 ATP binding site [chemical binding]; other site 1166018003737 Mg2+ binding site [ion binding]; other site 1166018003738 G-X-G motif; other site 1166018003739 PQQ-like domain; Region: PQQ_2; pfam13360 1166018003740 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1166018003741 active site 1166018003742 Trp docking motif [polypeptide binding]; other site 1166018003743 PQQ-like domain; Region: PQQ_2; pfam13360 1166018003744 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1166018003745 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018003746 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018003747 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018003748 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018003749 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 1166018003750 Walker A/P-loop; other site 1166018003751 ATP binding site [chemical binding]; other site 1166018003752 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 1166018003753 active site 1166018003754 DNA binding site [nucleotide binding] 1166018003755 Int/Topo IB signature motif; other site 1166018003756 Virulence-associated protein E; Region: VirE; pfam05272 1166018003757 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018003758 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1166018003759 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 1166018003760 S-adenosylmethionine binding site [chemical binding]; other site 1166018003761 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1166018003762 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1166018003763 active site 1166018003764 dimer interface [polypeptide binding]; other site 1166018003765 Domain of unknown function (DUF4281); Region: DUF4281; pfam14108 1166018003766 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018003767 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018003768 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1166018003769 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1166018003770 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018003771 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1166018003772 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018003773 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1166018003774 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1166018003775 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 1166018003776 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 1166018003777 phosphodiesterase; Provisional; Region: PRK12704 1166018003778 KH domain; Region: KH_1; pfam00013 1166018003779 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1166018003780 Zn2+ binding site [ion binding]; other site 1166018003781 Mg2+ binding site [ion binding]; other site 1166018003782 Cell division protein ZapA; Region: ZapA; pfam05164 1166018003783 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1166018003784 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 1166018003785 putative tRNA-binding site [nucleotide binding]; other site 1166018003786 B3/4 domain; Region: B3_4; pfam03483 1166018003787 tRNA synthetase B5 domain; Region: B5; pfam03484 1166018003788 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 1166018003789 dimer interface [polypeptide binding]; other site 1166018003790 motif 1; other site 1166018003791 motif 3; other site 1166018003792 motif 2; other site 1166018003793 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1166018003794 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 1166018003795 WxcM-like, C-terminal; Region: FdtA; pfam05523 1166018003796 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 1166018003797 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1166018003798 inhibitor-cofactor binding pocket; inhibition site 1166018003799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018003800 catalytic residue [active] 1166018003801 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1166018003802 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1166018003803 Ligand binding site; other site 1166018003804 Putative Catalytic site; other site 1166018003805 DXD motif; other site 1166018003806 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018003807 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1166018003808 Lumazine binding domain; Region: Lum_binding; pfam00677 1166018003809 Lumazine binding domain; Region: Lum_binding; pfam00677 1166018003810 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1166018003811 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1166018003812 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1166018003813 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018003814 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 1166018003815 active site residue [active] 1166018003816 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1166018003817 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1166018003818 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 1166018003819 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 1166018003820 putative substrate translocation pore; other site 1166018003821 POT family; Region: PTR2; cl17359 1166018003822 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 1166018003823 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 1166018003824 active site 1166018003825 substrate binding site [chemical binding]; other site 1166018003826 metal binding site [ion binding]; metal-binding site 1166018003827 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1166018003828 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018003829 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 1166018003830 DNA binding residues [nucleotide binding] 1166018003831 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1166018003832 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1166018003833 MOSC domain; Region: MOSC; pfam03473 1166018003834 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 1166018003835 UGMP family protein; Validated; Region: PRK09604 1166018003836 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1166018003837 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018003838 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_16; cd07263 1166018003839 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1166018003840 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1166018003841 NAD(P) binding site [chemical binding]; other site 1166018003842 Carboxylesterase family; Region: COesterase; pfam00135 1166018003843 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1166018003844 substrate binding pocket [chemical binding]; other site 1166018003845 catalytic triad [active] 1166018003846 DinB family; Region: DinB; cl17821 1166018003847 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018003848 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 1166018003849 binding surface 1166018003850 TPR motif; other site 1166018003851 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1166018003852 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 1166018003853 binding surface 1166018003854 TPR motif; other site 1166018003855 TPR repeat; Region: TPR_11; pfam13414 1166018003856 CHAT domain; Region: CHAT; pfam12770 1166018003857 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1166018003858 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1166018003859 dimer interface [polypeptide binding]; other site 1166018003860 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1166018003861 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018003862 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1166018003863 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018003864 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1166018003865 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018003866 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018003867 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018003868 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018003869 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1166018003870 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1166018003871 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 1166018003872 putative active site [active] 1166018003873 heme pocket [chemical binding]; other site 1166018003874 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018003875 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 1166018003876 dimer interface [polypeptide binding]; other site 1166018003877 phosphorylation site [posttranslational modification] 1166018003878 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 1166018003879 ATP binding site [chemical binding]; other site 1166018003880 Mg2+ binding site [ion binding]; other site 1166018003881 G-X-G motif; other site 1166018003882 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1166018003883 DNA photolyase; Region: DNA_photolyase; pfam00875 1166018003884 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1166018003885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018003886 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1166018003887 NAD(P) binding site [chemical binding]; other site 1166018003888 active site 1166018003889 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1166018003890 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1166018003891 active site 1166018003892 FMN binding site [chemical binding]; other site 1166018003893 substrate binding site [chemical binding]; other site 1166018003894 homotetramer interface [polypeptide binding]; other site 1166018003895 catalytic residue [active] 1166018003896 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 1166018003897 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1166018003898 substrate binding [chemical binding]; other site 1166018003899 active site 1166018003900 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1166018003901 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018003902 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018003903 SusD family; Region: SusD; pfam07980 1166018003904 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018003905 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018003906 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018003907 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018003908 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1166018003909 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1166018003910 putative substrate binding site [chemical binding]; other site 1166018003911 putative ATP binding site [chemical binding]; other site 1166018003912 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1166018003913 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 1166018003914 putative substrate translocation pore; other site 1166018003915 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 1166018003916 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1166018003917 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1166018003918 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018003919 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 1166018003920 dimer interface [polypeptide binding]; other site 1166018003921 phosphorylation site [posttranslational modification] 1166018003922 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 1166018003923 ATP binding site [chemical binding]; other site 1166018003924 Mg2+ binding site [ion binding]; other site 1166018003925 G-X-G motif; other site 1166018003926 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018003927 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 1166018003928 active site 1166018003929 phosphorylation site [posttranslational modification] 1166018003930 intermolecular recognition site; other site 1166018003931 dimerization interface [polypeptide binding]; other site 1166018003932 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018003933 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018003934 Domain of unknown function (DUF1793); Region: DUF1793; pfam08760 1166018003935 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1166018003936 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1166018003937 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_2; cd06160 1166018003938 Peptidase family M50; Region: Peptidase_M50; pfam02163 1166018003939 active site 1166018003940 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1166018003941 putative substrate binding region [chemical binding]; other site 1166018003942 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1166018003943 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 1166018003944 hypothetical protein; Reviewed; Region: PRK00024 1166018003945 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1166018003946 MPN+ (JAMM) motif; other site 1166018003947 Zinc-binding site [ion binding]; other site 1166018003948 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1166018003949 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1166018003950 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; cl01898 1166018003951 putative active site [active] 1166018003952 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1166018003953 active site 1166018003954 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1166018003955 sugar binding site [chemical binding]; other site 1166018003956 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018003957 Interdomain contacts; other site 1166018003958 Cytokine receptor motif; other site 1166018003959 DinB superfamily; Region: DinB_2; pfam12867 1166018003960 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 1166018003961 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 1166018003962 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018003963 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1166018003964 MutS domain III; Region: MutS_III; pfam05192 1166018003965 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018003966 Walker A/P-loop; other site 1166018003967 ATP binding site [chemical binding]; other site 1166018003968 Q-loop/lid; other site 1166018003969 ABC transporter signature motif; other site 1166018003970 Walker B; other site 1166018003971 D-loop; other site 1166018003972 H-loop/switch region; other site 1166018003973 Smr domain; Region: Smr; pfam01713 1166018003974 Predicted membrane protein [Function unknown]; Region: COG3650 1166018003975 META domain; Region: META; pfam03724 1166018003976 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 1166018003977 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1166018003978 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1166018003979 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1166018003980 active site 1166018003981 tetramer interface; other site 1166018003982 Protein of unknown function (DUF433); Region: DUF433; pfam04255 1166018003983 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1166018003984 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 1166018003985 putative catalytic residues [active] 1166018003986 nucleotide binding site [chemical binding]; other site 1166018003987 aspartate binding site [chemical binding]; other site 1166018003988 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1166018003989 dimer interface [polypeptide binding]; other site 1166018003990 putative threonine allosteric regulatory site; other site 1166018003991 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1166018003992 putative threonine allosteric regulatory site; other site 1166018003993 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1166018003994 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1166018003995 Family description; Region: VCBS; pfam13517 1166018003996 Family description; Region: VCBS; pfam13517 1166018003997 Family description; Region: VCBS; pfam13517 1166018003998 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1166018003999 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1166018004000 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1166018004001 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1166018004002 Ligand binding site; other site 1166018004003 Putative Catalytic site; other site 1166018004004 DXD motif; other site 1166018004005 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018004006 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1166018004007 FtsX-like permease family; Region: FtsX; pfam02687 1166018004008 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018004009 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 1166018004010 active site 1166018004011 phosphorylation site [posttranslational modification] 1166018004012 intermolecular recognition site; other site 1166018004013 dimerization interface [polypeptide binding]; other site 1166018004014 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 1166018004015 DNA binding site [nucleotide binding] 1166018004016 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018004017 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 1166018004018 dimer interface [polypeptide binding]; other site 1166018004019 phosphorylation site [posttranslational modification] 1166018004020 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 1166018004021 ATP binding site [chemical binding]; other site 1166018004022 Mg2+ binding site [ion binding]; other site 1166018004023 G-X-G motif; other site 1166018004024 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 1166018004025 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1166018004026 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1166018004027 GH3 auxin-responsive promoter; Region: GH3; pfam03321 1166018004028 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1166018004029 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1166018004030 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 1166018004031 Moco binding site; other site 1166018004032 metal coordination site [ion binding]; other site 1166018004033 GAF domain; Region: GAF; cl17456 1166018004034 topology modulation protein; Reviewed; Region: PRK08118 1166018004035 AAA domain; Region: AAA_17; pfam13207 1166018004036 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1166018004037 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 1166018004038 active site 1166018004039 dimerization interface [polypeptide binding]; other site 1166018004040 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1166018004041 Predicted methyltransferases [General function prediction only]; Region: COG0313 1166018004042 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1166018004043 putative SAM binding site [chemical binding]; other site 1166018004044 putative homodimer interface [polypeptide binding]; other site 1166018004045 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; cl00942 1166018004046 aromatic arch; other site 1166018004047 DCoH dimer interaction site [polypeptide binding]; other site 1166018004048 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1166018004049 DCoH tetramer interaction site [polypeptide binding]; other site 1166018004050 substrate binding site [chemical binding]; other site 1166018004051 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1166018004052 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1166018004053 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 1166018004054 Walker A/P-loop; other site 1166018004055 ATP binding site [chemical binding]; other site 1166018004056 Q-loop/lid; other site 1166018004057 ABC transporter signature motif; other site 1166018004058 Walker B; other site 1166018004059 D-loop; other site 1166018004060 H-loop/switch region; other site 1166018004061 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1166018004062 RDD family; Region: RDD; pfam06271 1166018004063 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1166018004064 hydrophobic ligand binding site; other site 1166018004065 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 1166018004066 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1166018004067 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1166018004068 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1166018004069 benzoate transport; Region: 2A0115; TIGR00895 1166018004070 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 1166018004071 putative substrate translocation pore; other site 1166018004072 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018004073 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018004074 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018004075 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1166018004076 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 1166018004077 active site 1166018004078 dimer interface [polypeptide binding]; other site 1166018004079 catalytic nucleophile [active] 1166018004080 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018004081 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018004082 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018004083 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 1166018004084 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018004085 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain; Region: GH18_EndoS-like; cd06542 1166018004086 active site 1166018004087 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 1166018004088 Beta/Gamma crystallin; Region: Crystall; cl02528 1166018004089 Family description; Region: VCBS; pfam13517 1166018004090 Family description; Region: VCBS; pfam13517 1166018004091 Family description; Region: VCBS; pfam13517 1166018004092 Family description; Region: VCBS; pfam13517 1166018004093 Family description; Region: VCBS; pfam13517 1166018004094 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 1166018004095 Family description; Region: VCBS; pfam13517 1166018004096 Family description; Region: VCBS; pfam13517 1166018004097 Family description; Region: VCBS; pfam13517 1166018004098 Family description; Region: VCBS; pfam13517 1166018004099 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 1166018004100 active site 1166018004101 MarR family; Region: MarR; pfam01047 1166018004102 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1166018004103 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1166018004104 nucleotide binding site [chemical binding]; other site 1166018004105 Glyco_18 domain; Region: Glyco_18; smart00636 1166018004106 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 1166018004107 active site 1166018004108 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 1166018004109 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1166018004110 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 1166018004111 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 1166018004112 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1166018004113 active site 1166018004114 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 1166018004115 PA14 domain; Region: PA14; pfam07691 1166018004116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 1166018004117 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018004118 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1166018004119 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 1166018004120 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 1166018004121 Amidohydrolase; Region: Amidohydro_4; pfam13147 1166018004122 active site 1166018004123 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 1166018004124 Fic family protein [Function unknown]; Region: COG3177 1166018004125 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 1166018004126 Fic/DOC family; Region: Fic; pfam02661 1166018004127 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018004128 Beta-lactamase; Region: Beta-lactamase; pfam00144 1166018004129 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1166018004130 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018004131 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018004132 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1166018004133 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1166018004134 RibD C-terminal domain; Region: RibD_C; cl17279 1166018004135 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1166018004136 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018004137 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1166018004138 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1166018004139 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018004140 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018004141 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018004142 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1166018004143 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018004144 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018004145 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1166018004146 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1166018004147 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018004148 catalytic residue [active] 1166018004149 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1166018004150 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1166018004151 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018004152 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018004153 Cytokine receptor motif; other site 1166018004154 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018004155 Interdomain contacts; other site 1166018004156 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 1166018004157 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018004158 Interdomain contacts; other site 1166018004159 Cytokine receptor motif; other site 1166018004160 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018004161 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 1166018004162 PspC domain; Region: PspC; pfam04024 1166018004163 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1166018004164 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 1166018004165 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1166018004166 putative active site [active] 1166018004167 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1166018004168 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1166018004169 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1166018004170 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 1166018004171 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018004172 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 1166018004173 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1166018004174 active site 1166018004175 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018004176 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018004177 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018004178 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018004179 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 1166018004180 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018004181 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 1166018004182 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 1166018004183 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 1166018004184 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018004185 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018004186 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018004187 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018004188 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018004189 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1166018004190 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1166018004191 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1166018004192 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1166018004193 NAD(P) binding site [chemical binding]; other site 1166018004194 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1166018004195 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018004196 Maf-like protein; Region: Maf; pfam02545 1166018004197 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 1166018004198 active site 1166018004199 dimer interface [polypeptide binding]; other site 1166018004200 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1166018004201 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1166018004202 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018004203 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 1166018004204 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1166018004205 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018004206 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 1166018004207 DNA binding residues [nucleotide binding] 1166018004208 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 1166018004209 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 1166018004210 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 1166018004211 Domain of unknown function (DUF1793); Region: DUF1793; pfam08760 1166018004212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1166018004213 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 1166018004214 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1166018004215 amidohydrolase; Region: amidohydrolases; TIGR01891 1166018004216 putative metal binding site [ion binding]; other site 1166018004217 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1166018004218 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1166018004219 putative metal binding site [ion binding]; other site 1166018004220 isocitrate dehydrogenase; Validated; Region: PRK08299 1166018004221 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1166018004222 mercuric reductase; Validated; Region: PRK06370 1166018004223 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1166018004224 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1166018004225 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018004226 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018004227 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018004228 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018004229 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018004230 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018004231 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1166018004232 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1166018004233 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1166018004234 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 1166018004235 dimer interface [polypeptide binding]; other site 1166018004236 putative PBP binding loops; other site 1166018004237 ABC-ATPase subunit interface; other site 1166018004238 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1166018004239 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 1166018004240 dimer interface [polypeptide binding]; other site 1166018004241 conserved gate region; other site 1166018004242 putative PBP binding loops; other site 1166018004243 ABC-ATPase subunit interface; other site 1166018004244 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1166018004245 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1166018004246 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1166018004247 Walker A/P-loop; other site 1166018004248 ATP binding site [chemical binding]; other site 1166018004249 Q-loop/lid; other site 1166018004250 ABC transporter signature motif; other site 1166018004251 Walker B; other site 1166018004252 D-loop; other site 1166018004253 H-loop/switch region; other site 1166018004254 Ferritin-like domain; Region: Ferritin_2; pfam13668 1166018004255 Ferritin-like domain; Region: Ferritin_2; pfam13668 1166018004256 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1166018004257 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 1166018004258 binding surface 1166018004259 TPR motif; other site 1166018004260 TPR repeat; Region: TPR_11; pfam13414 1166018004261 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 1166018004262 binding surface 1166018004263 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1166018004264 TPR motif; other site 1166018004265 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 1166018004266 binding surface 1166018004267 TPR repeat; Region: TPR_11; pfam13414 1166018004268 TPR motif; other site 1166018004269 TPR repeat; Region: TPR_11; pfam13414 1166018004270 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 1166018004271 binding surface 1166018004272 TPR repeat; Region: TPR_11; pfam13414 1166018004273 TPR motif; other site 1166018004274 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1166018004275 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1166018004276 putative NADP binding site [chemical binding]; other site 1166018004277 putative substrate binding site [chemical binding]; other site 1166018004278 active site 1166018004279 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1166018004280 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1166018004281 putative NAD(P) binding site [chemical binding]; other site 1166018004282 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1166018004283 TAP-like protein; Region: Abhydrolase_4; pfam08386 1166018004284 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 1166018004285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018004286 NAD(P) binding site [chemical binding]; other site 1166018004287 active site 1166018004288 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018004289 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018004290 short chain dehydrogenase; Validated; Region: PRK06182 1166018004291 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1166018004292 NADP binding site [chemical binding]; other site 1166018004293 active site 1166018004294 steroid binding site; other site 1166018004295 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018004296 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018004297 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1166018004298 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018004299 Coenzyme A binding pocket [chemical binding]; other site 1166018004300 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1166018004301 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1166018004302 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1166018004303 active site pocket [active] 1166018004304 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 1166018004305 active site 1166018004306 cell surface protein SprA; Region: surface_SprA; TIGR04189 1166018004307 Motility related/secretion protein; Region: SprA_N; pfam14349 1166018004308 Motility related/secretion protein; Region: SprA_N; pfam14349 1166018004309 Motility related/secretion protein; Region: SprA_N; pfam14349 1166018004310 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1166018004311 RuvA N terminal domain; Region: RuvA_N; pfam01330 1166018004312 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1166018004313 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1166018004314 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...; Region: LT_GEWL; cd00254 1166018004315 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1166018004316 catalytic residue [active] 1166018004317 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018004318 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018004319 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1166018004320 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1166018004321 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1166018004322 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1166018004323 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1166018004324 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1166018004325 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1166018004326 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1166018004327 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1166018004328 Chain length determinant protein; Region: Wzz; cl15801 1166018004329 tyrosine kinase; Provisional; Region: PRK11519 1166018004330 FlgN protein; Region: FlgN; pfam05130 1166018004331 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1166018004332 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1166018004333 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018004334 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 1166018004335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1166018004336 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1166018004337 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1166018004338 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1166018004339 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1166018004340 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 1166018004341 S-adenosylmethionine binding site [chemical binding]; other site 1166018004342 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018004343 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1166018004344 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018004345 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 1166018004346 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1166018004347 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 1166018004348 active site 1166018004349 dimer interface [polypeptide binding]; other site 1166018004350 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 1166018004351 Ligand Binding Site [chemical binding]; other site 1166018004352 Molecular Tunnel; other site 1166018004353 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1166018004354 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1166018004355 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1166018004356 putative metal binding site; other site 1166018004357 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1166018004358 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1166018004359 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 1166018004360 S-adenosylmethionine binding site [chemical binding]; other site 1166018004361 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 1166018004362 active site 1166018004363 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 1166018004364 homodimer interface [polypeptide binding]; other site 1166018004365 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1166018004366 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 1166018004367 putative NAD(P) binding site [chemical binding]; other site 1166018004368 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018004369 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018004370 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1166018004371 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018004372 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 1166018004373 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1166018004374 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 1166018004375 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 1166018004376 active site 1166018004377 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1166018004378 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1166018004379 hexamer interface [polypeptide binding]; other site 1166018004380 ligand binding site [chemical binding]; other site 1166018004381 putative active site [active] 1166018004382 NAD(P) binding site [chemical binding]; other site 1166018004383 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1166018004384 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1166018004385 putative DNA binding site [nucleotide binding]; other site 1166018004386 AsnC family; Region: AsnC_trans_reg; pfam01037 1166018004387 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1166018004388 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1166018004389 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 1166018004390 NADP binding site [chemical binding]; other site 1166018004391 dimer interface [polypeptide binding]; other site 1166018004392 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1166018004393 amphipathic channel; other site 1166018004394 Asn-Pro-Ala signature motifs; other site 1166018004395 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1166018004396 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 1166018004397 active site 1166018004398 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 1166018004399 active site 2 [active] 1166018004400 active site 1 [active] 1166018004401 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1166018004402 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1166018004403 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 1166018004404 dimer interface [polypeptide binding]; other site 1166018004405 active site 1166018004406 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 1166018004407 putative active site [active] 1166018004408 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 1166018004409 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1166018004410 substrate binding site [chemical binding]; other site 1166018004411 oxyanion hole (OAH) forming residues; other site 1166018004412 trimer interface [polypeptide binding]; other site 1166018004413 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1166018004414 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1166018004415 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1166018004416 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; cl00062 1166018004417 phosphopeptide binding site; other site 1166018004418 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 1166018004419 Protein phosphatase 2C; Region: PP2C; pfam00481 1166018004420 active site 1166018004421 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1166018004422 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1166018004423 active site 1166018004424 ATP binding site [chemical binding]; other site 1166018004425 substrate binding site [chemical binding]; other site 1166018004426 activation loop (A-loop); other site 1166018004427 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1166018004428 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1166018004429 active site 1166018004430 ATP binding site [chemical binding]; other site 1166018004431 substrate binding site [chemical binding]; other site 1166018004432 activation loop (A-loop); other site 1166018004433 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018004434 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1166018004435 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1166018004436 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 1166018004437 active site 1166018004438 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1166018004439 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 1166018004440 DNA binding site [nucleotide binding] 1166018004441 active site 1166018004442 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018004443 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 1166018004444 active site 1166018004445 phosphorylation site [posttranslational modification] 1166018004446 intermolecular recognition site; other site 1166018004447 dimerization interface [polypeptide binding]; other site 1166018004448 putative glycosyl transferase; Provisional; Region: PRK10073 1166018004449 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 1166018004450 active site 1166018004451 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1166018004452 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 1166018004453 active site 1166018004454 YceG-like family; Region: YceG; pfam02618 1166018004455 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 1166018004456 dimerization interface [polypeptide binding]; other site 1166018004457 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 1166018004458 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 1166018004459 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018004460 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 1166018004461 active site 1166018004462 phosphorylation site [posttranslational modification] 1166018004463 intermolecular recognition site; other site 1166018004464 dimerization interface [polypeptide binding]; other site 1166018004465 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018004466 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1166018004467 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...; Region: PLPDE_IV; cd00449 1166018004468 homodimer interface [polypeptide binding]; other site 1166018004469 substrate-cofactor binding pocket; other site 1166018004470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018004471 catalytic residue [active] 1166018004472 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 1166018004473 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 1166018004474 catalytic nucleophile [active] 1166018004475 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 1166018004476 active site 1166018004477 motif I; other site 1166018004478 motif II; other site 1166018004479 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1166018004480 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 1166018004481 ligand binding site [chemical binding]; other site 1166018004482 flexible hinge region; other site 1166018004483 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1166018004484 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1166018004485 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1166018004486 Sulfatase; Region: Sulfatase; cl17466 1166018004487 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1166018004488 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1166018004489 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018004490 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1166018004491 Sulfatase; Region: Sulfatase; pfam00884 1166018004492 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018004493 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018004494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018004495 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 1166018004496 NAD(P) binding site [chemical binding]; other site 1166018004497 active site 1166018004498 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1166018004499 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018004500 Walker A/P-loop; other site 1166018004501 ATP binding site [chemical binding]; other site 1166018004502 Q-loop/lid; other site 1166018004503 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018004504 Q-loop/lid; other site 1166018004505 ABC transporter signature motif; other site 1166018004506 Walker B; other site 1166018004507 D-loop; other site 1166018004508 H-loop/switch region; other site 1166018004509 exonuclease subunit SbcD; Provisional; Region: PRK10966 1166018004510 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1166018004511 active site 1166018004512 metal binding site [ion binding]; metal-binding site 1166018004513 DNA binding site [nucleotide binding] 1166018004514 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1166018004515 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1166018004516 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 1166018004517 catalytic loop [active] 1166018004518 iron binding site [ion binding]; other site 1166018004519 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1166018004520 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1166018004521 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1166018004522 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018004523 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018004524 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1166018004525 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1166018004526 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018004527 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018004528 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018004529 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018004530 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018004531 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018004532 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 1166018004533 putative substrate translocation pore; other site 1166018004534 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018004535 Domain of unknown function (DUF427); Region: DUF427; pfam04248 1166018004536 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1166018004537 heme-binding site [chemical binding]; other site 1166018004538 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018004539 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 1166018004540 active site 1166018004541 phosphorylation site [posttranslational modification] 1166018004542 intermolecular recognition site; other site 1166018004543 dimerization interface [polypeptide binding]; other site 1166018004544 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018004545 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1166018004546 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1166018004547 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1166018004548 Histidine kinase; Region: His_kinase; pfam06580 1166018004549 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...; Region: LT_GEWL; cd00254 1166018004550 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1166018004551 catalytic residue [active] 1166018004552 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 1166018004553 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...; Region: LT_GEWL; cd00254 1166018004554 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1166018004555 catalytic residue [active] 1166018004556 amino acid transporter; Region: 2A0306; TIGR00909 1166018004557 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1166018004558 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1166018004559 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1166018004560 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1166018004561 Protein export membrane protein; Region: SecD_SecF; pfam02355 1166018004562 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 1166018004563 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 1166018004564 active site 1166018004565 DNA binding site [nucleotide binding] 1166018004566 Int/Topo IB signature motif; other site 1166018004567 phosphodiesterase; Provisional; Region: PRK12704 1166018004568 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018004569 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018004570 SusD family; Region: SusD; pfam07980 1166018004571 Secretin and TonB N terminus short domain; Region: STN; pfam07660 1166018004572 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018004573 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018004574 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018004575 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018004576 FecR protein; Region: FecR; pfam04773 1166018004577 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1166018004578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018004579 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 1166018004580 DNA binding residues [nucleotide binding] 1166018004581 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 1166018004582 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 1166018004583 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1166018004584 active site 1166018004585 catalytic residues [active] 1166018004586 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1166018004587 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1166018004588 dimer interface [polypeptide binding]; other site 1166018004589 active site 1166018004590 heme binding site [chemical binding]; other site 1166018004591 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1166018004592 hypothetical protein; Provisional; Region: PRK02487 1166018004593 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018004594 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018004595 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1166018004596 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 1166018004597 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018004598 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 1166018004599 ATP binding site [chemical binding]; other site 1166018004600 Mg2+ binding site [ion binding]; other site 1166018004601 G-X-G motif; other site 1166018004602 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 1166018004603 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018004604 active site 1166018004605 phosphorylation site [posttranslational modification] 1166018004606 intermolecular recognition site; other site 1166018004607 dimerization interface [polypeptide binding]; other site 1166018004608 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1166018004609 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 1166018004610 Walker A motif; other site 1166018004611 ATP binding site [chemical binding]; other site 1166018004612 Walker B motif; other site 1166018004613 arginine finger; other site 1166018004614 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1166018004615 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1166018004616 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1166018004617 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1166018004618 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 1166018004619 putative hydrophobic ligand binding site [chemical binding]; other site 1166018004620 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1166018004621 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1166018004622 NAD binding site [chemical binding]; other site 1166018004623 catalytic Zn binding site [ion binding]; other site 1166018004624 structural Zn binding site [ion binding]; other site 1166018004625 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 1166018004626 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; pfam02148 1166018004627 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1166018004628 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1166018004629 active site 1166018004630 dimer interface [polypeptide binding]; other site 1166018004631 metal binding site [ion binding]; metal-binding site 1166018004632 Cupin domain; Region: Cupin_2; pfam07883 1166018004633 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018004634 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 1166018004635 active site 1166018004636 phosphorylation site [posttranslational modification] 1166018004637 intermolecular recognition site; other site 1166018004638 dimerization interface [polypeptide binding]; other site 1166018004639 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018004640 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1166018004641 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1166018004642 Histidine kinase; Region: His_kinase; pfam06580 1166018004643 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 1166018004644 ATP binding site [chemical binding]; other site 1166018004645 Mg2+ binding site [ion binding]; other site 1166018004646 G-X-G motif; other site 1166018004647 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 1166018004648 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 1166018004649 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1166018004650 active site 1166018004651 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018004652 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1166018004653 short chain dehydrogenase; Provisional; Region: PRK07326 1166018004654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018004655 NAD(P) binding site [chemical binding]; other site 1166018004656 active site 1166018004657 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1166018004658 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1166018004659 OsmC-like protein; Region: OsmC; pfam02566 1166018004660 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1166018004661 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 1166018004662 putative substrate translocation pore; other site 1166018004663 glycogen branching enzyme; Provisional; Region: PRK12313 1166018004664 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1166018004665 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1166018004666 active site 1166018004667 catalytic site [active] 1166018004668 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1166018004669 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1166018004670 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1166018004671 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018004672 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 1166018004673 active site 1166018004674 phosphorylation site [posttranslational modification] 1166018004675 intermolecular recognition site; other site 1166018004676 dimerization interface [polypeptide binding]; other site 1166018004677 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 1166018004678 DNA binding residues [nucleotide binding] 1166018004679 dimerization interface [polypeptide binding]; other site 1166018004680 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1166018004681 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1166018004682 Histidine kinase; Region: HisKA_3; pfam07730 1166018004683 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 1166018004684 ATP binding site [chemical binding]; other site 1166018004685 Mg2+ binding site [ion binding]; other site 1166018004686 G-X-G motif; other site 1166018004687 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018004688 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1166018004689 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018004690 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018004691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 1166018004692 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1166018004693 active site 1166018004694 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1166018004695 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 1166018004696 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 1166018004697 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1166018004698 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 1166018004699 dimer interface [polypeptide binding]; other site 1166018004700 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1166018004701 catalytic triad [active] 1166018004702 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018004703 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 1166018004704 active site 1166018004705 phosphorylation site [posttranslational modification] 1166018004706 intermolecular recognition site; other site 1166018004707 dimerization interface [polypeptide binding]; other site 1166018004708 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 1166018004709 dimerization interface [polypeptide binding]; other site 1166018004710 DNA binding residues [nucleotide binding] 1166018004711 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018004712 Histidine kinase; Region: HisKA_3; pfam07730 1166018004713 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 1166018004714 ATP binding site [chemical binding]; other site 1166018004715 Mg2+ binding site [ion binding]; other site 1166018004716 G-X-G motif; other site 1166018004717 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1166018004718 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1166018004719 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1166018004720 active site 1166018004721 catalytic residues [active] 1166018004722 DNA binding site [nucleotide binding] 1166018004723 Int/Topo IB signature motif; other site 1166018004724 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1166018004725 NlpC/P60 family; Region: NLPC_P60; pfam00877 1166018004726 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1166018004727 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1166018004728 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1166018004729 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 1166018004730 RNA binding site [nucleotide binding]; other site 1166018004731 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 1166018004732 histidinol dehydrogenase; Region: hisD; TIGR00069 1166018004733 NAD binding site [chemical binding]; other site 1166018004734 dimerization interface [polypeptide binding]; other site 1166018004735 product binding site; other site 1166018004736 substrate binding site [chemical binding]; other site 1166018004737 zinc binding site [ion binding]; other site 1166018004738 catalytic residues [active] 1166018004739 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1166018004740 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1166018004741 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1166018004742 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018004743 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 1166018004744 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1166018004745 ATP binding site [chemical binding]; other site 1166018004746 Mg++ binding site [ion binding]; other site 1166018004747 motif III; other site 1166018004748 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 1166018004749 nucleotide binding region [chemical binding]; other site 1166018004750 ATP-binding site [chemical binding]; other site 1166018004751 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1166018004752 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1166018004753 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1166018004754 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1166018004755 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 1166018004756 homotrimer interaction site [polypeptide binding]; other site 1166018004757 zinc binding site [ion binding]; other site 1166018004758 CDP-binding sites; other site 1166018004759 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1166018004760 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 1166018004761 active site 1166018004762 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 1166018004763 Amidohydrolase; Region: Amidohydro_4; pfam13147 1166018004764 active site 1166018004765 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1166018004766 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 1166018004767 active site 1166018004768 Bifunctional nuclease; Region: DNase-RNase; pfam02577 1166018004769 UvrB/uvrC motif; Region: UVR; pfam02151 1166018004770 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 1166018004771 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 1166018004772 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1166018004773 ApbE family; Region: ApbE; pfam02424 1166018004774 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 1166018004775 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018004776 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 1166018004777 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1166018004778 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 1166018004779 Ligand Binding Site [chemical binding]; other site 1166018004780 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1166018004781 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 1166018004782 Ligand binding site [chemical binding]; other site 1166018004783 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1166018004784 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1166018004785 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1166018004786 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1166018004787 active site 1166018004788 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1166018004789 Cupin domain; Region: Cupin_2; pfam07883 1166018004790 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018004791 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018004792 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1166018004793 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1166018004794 AP (apurinic/apyrimidinic) site pocket; other site 1166018004795 DNA interaction; other site 1166018004796 Metal-binding active site; metal-binding site 1166018004797 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018004798 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018004799 Trehalose utilisation; Region: ThuA; pfam06283 1166018004800 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 1166018004801 CARDB; Region: CARDB; pfam07705 1166018004802 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1166018004803 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018004804 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1166018004805 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1166018004806 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018004807 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 1166018004808 dimer interface [polypeptide binding]; other site 1166018004809 phosphorylation site [posttranslational modification] 1166018004810 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 1166018004811 ATP binding site [chemical binding]; other site 1166018004812 Mg2+ binding site [ion binding]; other site 1166018004813 G-X-G motif; other site 1166018004814 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1166018004815 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018004816 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 1166018004817 active site 1166018004818 phosphorylation site [posttranslational modification] 1166018004819 intermolecular recognition site; other site 1166018004820 dimerization interface [polypeptide binding]; other site 1166018004821 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 1166018004822 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1166018004823 ligand binding site [chemical binding]; other site 1166018004824 flexible hinge region; other site 1166018004825 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1166018004826 putative switch regulator; other site 1166018004827 non-specific DNA interactions [nucleotide binding]; other site 1166018004828 DNA binding site [nucleotide binding] 1166018004829 sequence specific DNA binding site [nucleotide binding]; other site 1166018004830 putative cAMP binding site [chemical binding]; other site 1166018004831 PAS domain S-box; Region: sensory_box; TIGR00229 1166018004832 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 1166018004833 putative active site [active] 1166018004834 heme pocket [chemical binding]; other site 1166018004835 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018004836 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 1166018004837 dimer interface [polypeptide binding]; other site 1166018004838 phosphorylation site [posttranslational modification] 1166018004839 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 1166018004840 ATP binding site [chemical binding]; other site 1166018004841 Mg2+ binding site [ion binding]; other site 1166018004842 G-X-G motif; other site 1166018004843 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 1166018004844 Ligand Binding Site [chemical binding]; other site 1166018004845 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 1166018004846 Ligand Binding Site [chemical binding]; other site 1166018004847 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1166018004848 MutS domain I; Region: MutS_I; pfam01624 1166018004849 MutS domain II; Region: MutS_II; pfam05188 1166018004850 MutS domain III; Region: MutS_III; pfam05192 1166018004851 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1166018004852 Walker A/P-loop; other site 1166018004853 ATP binding site [chemical binding]; other site 1166018004854 Q-loop/lid; other site 1166018004855 ABC transporter signature motif; other site 1166018004856 Walker B; other site 1166018004857 D-loop; other site 1166018004858 H-loop/switch region; other site 1166018004859 SnoaL-like domain; Region: SnoaL_2; pfam12680 1166018004860 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...; Region: LT_GEWL; cd00254 1166018004861 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1166018004862 catalytic residue [active] 1166018004863 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1166018004864 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 1166018004865 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1166018004866 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1166018004867 active site 1166018004868 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1166018004869 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1166018004870 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1166018004871 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1166018004872 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1166018004873 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1166018004874 NAD binding site [chemical binding]; other site 1166018004875 putative substrate binding site 2 [chemical binding]; other site 1166018004876 putative substrate binding site 1 [chemical binding]; other site 1166018004877 active site 1166018004878 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1166018004879 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1166018004880 hinge region; other site 1166018004881 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 1166018004882 putative nucleotide binding site [chemical binding]; other site 1166018004883 uridine monophosphate binding site [chemical binding]; other site 1166018004884 homohexameric interface [polypeptide binding]; other site 1166018004885 isocitrate dehydrogenase; Validated; Region: PRK09222 1166018004886 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1166018004887 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1166018004888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1166018004889 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 1166018004890 dimerization interface [polypeptide binding]; other site 1166018004891 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 1166018004892 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1166018004893 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 1166018004894 carboxyltransferase (CT) interaction site; other site 1166018004895 biotinylation site [posttranslational modification]; other site 1166018004896 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1166018004897 EamA-like transporter family; Region: EamA; pfam00892 1166018004898 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1166018004899 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 1166018004900 FMN binding site [chemical binding]; other site 1166018004901 active site 1166018004902 catalytic residues [active] 1166018004903 substrate binding site [chemical binding]; other site 1166018004904 CAAX protease self-immunity; Region: Abi; pfam02517 1166018004905 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1166018004906 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1166018004907 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 1166018004908 active site 1166018004909 DNA binding site [nucleotide binding] 1166018004910 Int/Topo IB signature motif; other site 1166018004911 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 1166018004912 non-specific DNA binding site [nucleotide binding]; other site 1166018004913 salt bridge; other site 1166018004914 sequence-specific DNA binding site [nucleotide binding]; other site 1166018004915 Predicted transcriptional regulator [Transcription]; Region: COG2932 1166018004916 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; cd06462 1166018004917 Catalytic site [active] 1166018004918 Helix-turn-helix domain; Region: HTH_17; pfam12728 1166018004919 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 1166018004920 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1166018004921 DNA methylase; Region: N6_N4_Mtase; pfam01555 1166018004922 Peptidase M15; Region: Peptidase_M15_3; cl01194 1166018004923 Southampton virus-type processing peptidase; Region: Peptidase_C37; pfam05416 1166018004924 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 1166018004925 active site 1166018004926 catalytic triad [active] 1166018004927 oxyanion hole [active] 1166018004928 glycerol kinase; Region: glycerol_kin; TIGR01311 1166018004929 MAEBL; Provisional; Region: PTZ00121 1166018004930 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1166018004931 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 1166018004932 DNA-binding interface [nucleotide binding]; DNA binding site 1166018004933 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1166018004934 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1166018004935 active site 1166018004936 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1166018004937 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 1166018004938 active site 1166018004939 DNA binding site [nucleotide binding] 1166018004940 Int/Topo IB signature motif; other site 1166018004941 YopX protein; Region: YopX; cl09859 1166018004942 AntA/AntB antirepressor; Region: AntA; pfam08346 1166018004943 Phage terminase large subunit; Region: Terminase_3; cl12054 1166018004944 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1166018004945 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 1166018004946 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1166018004947 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1166018004948 cofactor binding site; other site 1166018004949 DNA binding site [nucleotide binding] 1166018004950 substrate interaction site [chemical binding]; other site 1166018004951 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1166018004952 Protein of unknown function (DUF2693); Region: DUF2693; pfam10902 1166018004953 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018004954 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; cl17904 1166018004955 putative substrate translocation pore; other site 1166018004956 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1166018004957 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1166018004958 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1166018004959 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1166018004960 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 1166018004961 E3 interaction surface; other site 1166018004962 lipoyl attachment site [posttranslational modification]; other site 1166018004963 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1166018004964 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 1166018004965 E3 interaction surface; other site 1166018004966 lipoyl attachment site [posttranslational modification]; other site 1166018004967 e3 binding domain; Region: E3_binding; pfam02817 1166018004968 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1166018004969 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1166018004970 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 1166018004971 TPP-binding site [chemical binding]; other site 1166018004972 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1166018004973 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 1166018004974 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1166018004975 Surface antigen; Region: Bac_surface_Ag; pfam01103 1166018004976 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018004977 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 1166018004978 active site 1166018004979 phosphorylation site [posttranslational modification] 1166018004980 intermolecular recognition site; other site 1166018004981 dimerization interface [polypeptide binding]; other site 1166018004982 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1166018004983 cyclase homology domain; Region: CHD; cd07302 1166018004984 nucleotidyl binding site; other site 1166018004985 metal binding site [ion binding]; metal-binding site 1166018004986 dimer interface [polypeptide binding]; other site 1166018004987 heat shock protein 90; Provisional; Region: PRK05218 1166018004988 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 1166018004989 ATP binding site [chemical binding]; other site 1166018004990 Mg2+ binding site [ion binding]; other site 1166018004991 G-X-G motif; other site 1166018004992 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 1166018004993 binding surface 1166018004994 TPR motif; other site 1166018004995 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 1166018004996 binding surface 1166018004997 TPR motif; other site 1166018004998 TPR repeat; Region: TPR_11; pfam13414 1166018004999 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 1166018005000 binding surface 1166018005001 TPR motif; other site 1166018005002 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1166018005003 Sel1-like repeats; Region: SEL1; smart00671 1166018005004 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 1166018005005 active site residue [active] 1166018005006 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1166018005007 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1166018005008 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1166018005009 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1166018005010 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1166018005011 putative carbohydrate kinase; Provisional; Region: PRK10565 1166018005012 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1166018005013 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 1166018005014 putative substrate binding site [chemical binding]; other site 1166018005015 putative ATP binding site [chemical binding]; other site 1166018005016 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 1166018005017 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1166018005018 G1 box; other site 1166018005019 GTP/Mg2+ binding site [chemical binding]; other site 1166018005020 Switch I region; other site 1166018005021 G2 box; other site 1166018005022 G3 box; other site 1166018005023 Switch II region; other site 1166018005024 G4 box; other site 1166018005025 G5 box; other site 1166018005026 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1166018005027 Nucleoside recognition; Region: Gate; pfam07670 1166018005028 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1166018005029 Nucleoside recognition; Region: Gate; pfam07670 1166018005030 FeoA domain; Region: FeoA; pfam04023 1166018005031 Family of unknown function (DUF490); Region: DUF490; pfam04357 1166018005032 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1166018005033 Domain of unknown function DUF21; Region: DUF21; pfam01595 1166018005034 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 1166018005035 Transporter associated domain; Region: CorC_HlyC; smart01091 1166018005036 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1166018005037 CcmE; Region: CcmE; cl00994 1166018005038 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1166018005039 CcmB protein; Region: CcmB; cl17444 1166018005040 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1166018005041 Ligand binding site; other site 1166018005042 Putative Catalytic site; other site 1166018005043 DXD motif; other site 1166018005044 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 1166018005045 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 1166018005046 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 1166018005047 putative DNA binding site [nucleotide binding]; other site 1166018005048 dimerization interface [polypeptide binding]; other site 1166018005049 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1166018005050 putative Zn2+ binding site [ion binding]; other site 1166018005051 Predicted membrane protein [Function unknown]; Region: COG2323 1166018005052 Protein of unknown function (DUF770); Region: DUF770; cl01402 1166018005053 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 1166018005054 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1166018005055 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1166018005056 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 1166018005057 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1166018005058 RHS Repeat; Region: RHS_repeat; pfam05593 1166018005059 RHS Repeat; Region: RHS_repeat; pfam05593 1166018005060 RHS Repeat; Region: RHS_repeat; pfam05593 1166018005061 RHS Repeat; Region: RHS_repeat; pfam05593 1166018005062 RHS Repeat; Region: RHS_repeat; cl11982 1166018005063 RHS Repeat; Region: RHS_repeat; pfam05593 1166018005064 RHS Repeat; Region: RHS_repeat; cl11982 1166018005065 RHS protein; Region: RHS; pfam03527 1166018005066 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1166018005067 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1166018005068 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1166018005069 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1166018005070 active site 1166018005071 homodimer interface [polypeptide binding]; other site 1166018005072 catalytic site [active] 1166018005073 acceptor binding site [chemical binding]; other site 1166018005074 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 1166018005075 metal ion-dependent adhesion site (MIDAS); other site 1166018005076 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1166018005077 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1166018005078 NAD(P) binding site [chemical binding]; other site 1166018005079 homotetramer interface [polypeptide binding]; other site 1166018005080 homodimer interface [polypeptide binding]; other site 1166018005081 active site 1166018005082 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018005083 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 1166018005084 metal ion-dependent adhesion site (MIDAS); other site 1166018005085 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018005086 NIPSNAP; Region: NIPSNAP; pfam07978 1166018005087 NIPSNAP; Region: NIPSNAP; pfam07978 1166018005088 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1166018005089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1166018005090 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_IV; cd01994 1166018005091 Ligand Binding Site [chemical binding]; other site 1166018005092 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1166018005093 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018005094 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018005095 DoxX-like family; Region: DoxX_2; pfam13564 1166018005096 Predicted transcriptional regulators [Transcription]; Region: COG1733 1166018005097 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1166018005098 EcsC protein family; Region: EcsC; pfam12787 1166018005099 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 1166018005100 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1166018005101 Clp amino terminal domain; Region: Clp_N; pfam02861 1166018005102 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 1166018005103 Walker A motif; other site 1166018005104 ATP binding site [chemical binding]; other site 1166018005105 Walker B motif; other site 1166018005106 arginine finger; other site 1166018005107 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 1166018005108 Walker A motif; other site 1166018005109 ATP binding site [chemical binding]; other site 1166018005110 Walker B motif; other site 1166018005111 arginine finger; other site 1166018005112 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1166018005113 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1166018005114 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1166018005115 active site 1166018005116 ATP binding site [chemical binding]; other site 1166018005117 substrate binding site [chemical binding]; other site 1166018005118 activation loop (A-loop); other site 1166018005119 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 1166018005120 Protein phosphatase 2C; Region: PP2C; pfam00481 1166018005121 active site 1166018005122 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 1166018005123 phosphopeptide binding site; other site 1166018005124 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 1166018005125 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1166018005126 phosphopeptide binding site; other site 1166018005127 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 1166018005128 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1166018005129 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 1166018005130 active site 1166018005131 DNA binding site [nucleotide binding] 1166018005132 Int/Topo IB signature motif; other site 1166018005133 catalytic residues [active] 1166018005134 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1166018005135 CoA binding domain; Region: CoA_binding; smart00881 1166018005136 CoA-ligase; Region: Ligase_CoA; pfam00549 1166018005137 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 1166018005138 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1166018005139 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 1166018005140 active site 1166018005141 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 1166018005142 gliding motility-associated lipoprotein GldK; Region: GldK_short; TIGR03529 1166018005143 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1166018005144 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 1166018005145 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 1166018005146 GldM N-terminal domain; Region: GldM_N; pfam12081 1166018005147 GldM C-terminal domain; Region: GldM_C; pfam12080 1166018005148 gliding motility associated protien GldN; Region: GldN; TIGR03523 1166018005149 gliding motility associated protien GldN; Region: GldN; TIGR03523 1166018005150 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1166018005151 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1166018005152 GIY-YIG motif/motif A; other site 1166018005153 active site 1166018005154 catalytic site [active] 1166018005155 putative DNA binding site [nucleotide binding]; other site 1166018005156 metal binding site [ion binding]; metal-binding site 1166018005157 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1166018005158 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1166018005159 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1166018005160 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 1166018005161 Ligand Binding Site [chemical binding]; other site 1166018005162 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1166018005163 active site 1166018005164 metal binding site [ion binding]; metal-binding site 1166018005165 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1166018005166 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1166018005167 conserved hypothetical integral membrane protein; Region: TIGR03766 1166018005168 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 1166018005169 dimerization interface [polypeptide binding]; other site 1166018005170 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 1166018005171 dimer interface [polypeptide binding]; other site 1166018005172 phosphorylation site [posttranslational modification] 1166018005173 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 1166018005174 ATP binding site [chemical binding]; other site 1166018005175 G-X-G motif; other site 1166018005176 NUMOD4 motif; Region: NUMOD4; pfam07463 1166018005177 HNH endonuclease; Region: HNH_3; pfam13392 1166018005178 CoA binding domain; Region: CoA_binding_2; pfam13380 1166018005179 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1166018005180 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 1166018005181 S-adenosylmethionine binding site [chemical binding]; other site 1166018005182 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 1166018005183 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 1166018005184 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 1166018005185 active site 1166018005186 RNA/DNA hybrid binding site [nucleotide binding]; other site 1166018005187 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018005188 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1166018005189 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1166018005190 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018005191 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018005192 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1166018005193 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 1166018005194 catalytic loop [active] 1166018005195 iron binding site [ion binding]; other site 1166018005196 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1166018005197 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1166018005198 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1166018005199 NADP binding site [chemical binding]; other site 1166018005200 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018005201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018005202 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1166018005203 SdpI/YhfL protein family; Region: SdpI; pfam13630 1166018005204 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018005205 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 1166018005206 dimerization interface [polypeptide binding]; other site 1166018005207 putative DNA binding site [nucleotide binding]; other site 1166018005208 putative Zn2+ binding site [ion binding]; other site 1166018005209 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1166018005210 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1166018005211 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 1166018005212 metal binding site [ion binding]; metal-binding site 1166018005213 dimer interface [polypeptide binding]; other site 1166018005214 Protein of unknown function (DUF664); Region: DUF664; pfam04978 1166018005215 DinB superfamily; Region: DinB_2; pfam12867 1166018005216 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 1166018005217 putative active site [active] 1166018005218 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1166018005219 ABC1 family; Region: ABC1; cl17513 1166018005220 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1166018005221 active site 1166018005222 ATP binding site [chemical binding]; other site 1166018005223 Right handed beta helix region; Region: Beta_helix; pfam13229 1166018005224 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 1166018005225 dimerization interface [polypeptide binding]; other site 1166018005226 putative active cleft [active] 1166018005227 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1166018005228 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 1166018005229 catalytic motif [active] 1166018005230 Zn binding site [ion binding]; other site 1166018005231 Protein of unknown function, DUF479; Region: DUF479; cl01203 1166018005232 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 1166018005233 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 1166018005234 Zn binding site [ion binding]; other site 1166018005235 Ribosome-binding factor A; Region: RBFA; cl00542 1166018005236 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1166018005237 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1166018005238 DNA polymerase III, delta subunit; Region: holA; TIGR01128 1166018005239 PQQ-like domain; Region: PQQ_2; pfam13360 1166018005240 CheB methylesterase; Region: CheB_methylest; pfam01339 1166018005241 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1166018005242 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1166018005243 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018005244 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 1166018005245 active site 1166018005246 phosphorylation site [posttranslational modification] 1166018005247 intermolecular recognition site; other site 1166018005248 dimerization interface [polypeptide binding]; other site 1166018005249 CHASE3 domain; Region: CHASE3; pfam05227 1166018005250 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 1166018005251 dimerization interface [polypeptide binding]; other site 1166018005252 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 1166018005253 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 1166018005254 ATP binding site [chemical binding]; other site 1166018005255 Mg2+ binding site [ion binding]; other site 1166018005256 G-X-G motif; other site 1166018005257 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018005258 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 1166018005259 active site 1166018005260 phosphorylation site [posttranslational modification] 1166018005261 intermolecular recognition site; other site 1166018005262 dimerization interface [polypeptide binding]; other site 1166018005263 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018005264 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 1166018005265 active site 1166018005266 phosphorylation site [posttranslational modification] 1166018005267 intermolecular recognition site; other site 1166018005268 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018005269 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 1166018005270 active site 1166018005271 phosphorylation site [posttranslational modification] 1166018005272 intermolecular recognition site; other site 1166018005273 dimerization interface [polypeptide binding]; other site 1166018005274 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018005275 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 1166018005276 active site 1166018005277 phosphorylation site [posttranslational modification] 1166018005278 intermolecular recognition site; other site 1166018005279 dimerization interface [polypeptide binding]; other site 1166018005280 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018005281 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 1166018005282 dimer interface [polypeptide binding]; other site 1166018005283 phosphorylation site [posttranslational modification] 1166018005284 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 1166018005285 ATP binding site [chemical binding]; other site 1166018005286 Mg2+ binding site [ion binding]; other site 1166018005287 G-X-G motif; other site 1166018005288 YHS domain; Region: YHS; pfam04945 1166018005289 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1166018005290 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 1166018005291 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1166018005292 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1166018005293 active site 1166018005294 dimer interface [polypeptide binding]; other site 1166018005295 non-prolyl cis peptide bond; other site 1166018005296 insertion regions; other site 1166018005297 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1166018005298 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1166018005299 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1166018005300 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1166018005301 Moco binding site; other site 1166018005302 metal coordination site [ion binding]; other site 1166018005303 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1166018005304 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018005305 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018005306 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018005307 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018005308 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018005309 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018005310 Predicted transcriptional regulator [Transcription]; Region: COG1959 1166018005311 Transcriptional regulator; Region: Rrf2; pfam02082 1166018005312 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018005313 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018005314 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 1166018005315 N-terminal plug; other site 1166018005316 ligand-binding site [chemical binding]; other site 1166018005317 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 1166018005318 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1166018005319 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1166018005320 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 1166018005321 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018005322 catalytic residues [active] 1166018005323 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018005324 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018005325 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018005326 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018005327 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018005328 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018005329 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 1166018005330 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1166018005331 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 1166018005332 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1166018005333 active site 1166018005334 dimer interface [polypeptide binding]; other site 1166018005335 non-prolyl cis peptide bond; other site 1166018005336 insertion regions; other site 1166018005337 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1166018005338 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 1166018005339 putative active site [active] 1166018005340 Zn binding site [ion binding]; other site 1166018005341 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 1166018005342 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1166018005343 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1166018005344 hydrophobic ligand binding site; other site 1166018005345 Predicted permeases [General function prediction only]; Region: COG0795 1166018005346 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1166018005347 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1166018005348 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1166018005349 biotin synthase; Region: bioB; TIGR00433 1166018005350 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 1166018005351 FeS/SAM binding site; other site 1166018005352 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1166018005353 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 1166018005354 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018005355 gliding motility-associated protein GldC; Region: GldC; TIGR03515 1166018005356 Uncharacterized conserved protein [Function unknown]; Region: COG3379 1166018005357 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1166018005358 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 1166018005359 active site 1166018005360 metal binding site [ion binding]; metal-binding site 1166018005361 Protein of unknown function (DUF1682); Region: DUF1682; pfam07946 1166018005362 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1166018005363 TPR repeat; Region: TPR_11; pfam13414 1166018005364 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1166018005365 UbiA prenyltransferase family; Region: UbiA; pfam01040 1166018005366 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1166018005367 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1166018005368 active site 1166018005369 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 1166018005370 competence damage-inducible protein A; Provisional; Region: PRK00549 1166018005371 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 1166018005372 putative MPT binding site; other site 1166018005373 Competence-damaged protein; Region: CinA; pfam02464 1166018005374 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1166018005375 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 1166018005376 E3 interaction surface; other site 1166018005377 lipoyl attachment site [posttranslational modification]; other site 1166018005378 e3 binding domain; Region: E3_binding; pfam02817 1166018005379 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1166018005380 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018005381 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018005382 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018005383 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1166018005384 Arginase family; Region: Arginase; pfam00491 1166018005385 active site 1166018005386 metal binding site [ion binding]; metal-binding site 1166018005387 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018005388 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 1166018005389 active site 1166018005390 phosphorylation site [posttranslational modification] 1166018005391 intermolecular recognition site; other site 1166018005392 dimerization interface [polypeptide binding]; other site 1166018005393 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018005394 Histidine kinase; Region: His_kinase; pfam06580 1166018005395 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1166018005396 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 1166018005397 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 1166018005398 thiopeptide-type bacteriocin biosynthesis domain; Region: thiopep_ocin; TIGR03891 1166018005399 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 1166018005400 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1166018005401 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1166018005402 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 1166018005403 Walker A motif; other site 1166018005404 ATP binding site [chemical binding]; other site 1166018005405 Walker B motif; other site 1166018005406 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1166018005407 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018005408 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1166018005409 catalytic site [active] 1166018005410 TAP-like protein; Region: Abhydrolase_4; pfam08386 1166018005411 acetylornithine aminotransferase; Provisional; Region: PRK02627 1166018005412 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 1166018005413 inhibitor-cofactor binding pocket; inhibition site 1166018005414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018005415 catalytic residue [active] 1166018005416 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 1166018005417 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1166018005418 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1166018005419 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 1166018005420 nucleotide binding site [chemical binding]; other site 1166018005421 N-acetyl-L-glutamate binding site [chemical binding]; other site 1166018005422 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1166018005423 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1166018005424 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1166018005425 active site 1166018005426 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1166018005427 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 1166018005428 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 1166018005429 active site 1166018005430 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1166018005431 Surface antigen; Region: Bac_surface_Ag; pfam01103 1166018005432 Family of unknown function (DUF490); Region: DUF490; pfam04357 1166018005433 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1166018005434 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 1166018005435 dimer interface [polypeptide binding]; other site 1166018005436 putative functional site; other site 1166018005437 putative MPT binding site; other site 1166018005438 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 1166018005439 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018005440 catalytic residues [active] 1166018005441 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018005442 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1166018005443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018005444 Walker A/P-loop; other site 1166018005445 ATP binding site [chemical binding]; other site 1166018005446 Q-loop/lid; other site 1166018005447 ABC transporter signature motif; other site 1166018005448 Walker B; other site 1166018005449 D-loop; other site 1166018005450 H-loop/switch region; other site 1166018005451 Immunoglobulin domain; Region: Ig; cl11960 1166018005452 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018005453 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018005454 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018005455 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018005456 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1166018005457 Histidine kinase; Region: His_kinase; pfam06580 1166018005458 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018005459 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1166018005460 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1166018005461 putative RNA binding site [nucleotide binding]; other site 1166018005462 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 1166018005463 S-adenosylmethionine binding site [chemical binding]; other site 1166018005464 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1166018005465 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1166018005466 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1166018005467 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1166018005468 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018005469 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 1166018005470 active site 1166018005471 phosphorylation site [posttranslational modification] 1166018005472 intermolecular recognition site; other site 1166018005473 dimerization interface [polypeptide binding]; other site 1166018005474 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018005475 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018005476 Predicted metalloprotease [General function prediction only]; Region: COG2321 1166018005477 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1166018005478 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018005479 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018005480 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018005481 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018005482 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018005483 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 1166018005484 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1166018005485 active site 1166018005486 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1166018005487 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1166018005488 DNA binding site [nucleotide binding] 1166018005489 domain linker motif; other site 1166018005490 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1166018005491 ligand binding site [chemical binding]; other site 1166018005492 dimerization interface [polypeptide binding]; other site 1166018005493 Family description; Region: VCBS; pfam13517 1166018005494 Family description; Region: VCBS; pfam13517 1166018005495 Family description; Region: VCBS; pfam13517 1166018005496 Family description; Region: VCBS; pfam13517 1166018005497 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 1166018005498 Family description; Region: VCBS; pfam13517 1166018005499 Family description; Region: VCBS; pfam13517 1166018005500 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 1166018005501 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 1166018005502 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018005503 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018005504 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018005505 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018005506 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018005507 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018005508 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 1166018005509 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1166018005510 active site 1166018005511 trimer interface [polypeptide binding]; other site 1166018005512 allosteric site; other site 1166018005513 active site lid [active] 1166018005514 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1166018005515 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1166018005516 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 1166018005517 active site 1166018005518 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 1166018005519 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1166018005520 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1166018005521 Transglycosylase; Region: Transgly; pfam00912 1166018005522 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1166018005523 2TM domain; Region: 2TM; pfam13239 1166018005524 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1166018005525 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1166018005526 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1166018005527 Walker A/P-loop; other site 1166018005528 ATP binding site [chemical binding]; other site 1166018005529 Q-loop/lid; other site 1166018005530 ABC transporter signature motif; other site 1166018005531 Walker B; other site 1166018005532 D-loop; other site 1166018005533 H-loop/switch region; other site 1166018005534 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 1166018005535 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...; Region: LT_GEWL; cd00254 1166018005536 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1166018005537 catalytic residue [active] 1166018005538 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 1166018005539 E3 interaction surface; other site 1166018005540 lipoyl attachment site [posttranslational modification]; other site 1166018005541 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1166018005542 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 1166018005543 E3 interaction surface; other site 1166018005544 lipoyl attachment site [posttranslational modification]; other site 1166018005545 e3 binding domain; Region: E3_binding; pfam02817 1166018005546 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1166018005547 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 1166018005548 active site 1166018005549 HslU subunit interaction site [polypeptide binding]; other site 1166018005550 CHASE3 domain; Region: CHASE3; pfam05227 1166018005551 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018005552 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 1166018005553 dimer interface [polypeptide binding]; other site 1166018005554 phosphorylation site [posttranslational modification] 1166018005555 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 1166018005556 ATP binding site [chemical binding]; other site 1166018005557 Mg2+ binding site [ion binding]; other site 1166018005558 G-X-G motif; other site 1166018005559 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1166018005560 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1166018005561 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1166018005562 Beta-Casp domain; Region: Beta-Casp; smart01027 1166018005563 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1166018005564 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1166018005565 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1166018005566 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 1166018005567 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 1166018005568 active site 1166018005569 zinc binding site [ion binding]; other site 1166018005570 metal-dependent hydrolase; Provisional; Region: PRK13291 1166018005571 DinB superfamily; Region: DinB_2; pfam12867 1166018005572 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1166018005573 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1166018005574 putative ABC transporter; Region: ycf24; CHL00085 1166018005575 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1166018005576 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018005577 Cupin domain; Region: Cupin_2; cl17218 1166018005578 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1166018005579 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 1166018005580 putative NAD(P) binding site [chemical binding]; other site 1166018005581 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1166018005582 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 1166018005583 Walker A motif; other site 1166018005584 ATP binding site [chemical binding]; other site 1166018005585 Walker B motif; other site 1166018005586 arginine finger; other site 1166018005587 CotH protein; Region: CotH; pfam08757 1166018005588 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 1166018005589 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1166018005590 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 1166018005591 FeS/SAM binding site; other site 1166018005592 TRAM domain; Region: TRAM; pfam01938 1166018005593 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1166018005594 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 1166018005595 Walker A motif; other site 1166018005596 ATP binding site [chemical binding]; other site 1166018005597 Walker B motif; other site 1166018005598 arginine finger; other site 1166018005599 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1166018005600 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1166018005601 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1166018005602 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1166018005603 Walker A/P-loop; other site 1166018005604 ATP binding site [chemical binding]; other site 1166018005605 Q-loop/lid; other site 1166018005606 ABC transporter signature motif; other site 1166018005607 Walker B; other site 1166018005608 D-loop; other site 1166018005609 H-loop/switch region; other site 1166018005610 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 1166018005611 binding surface 1166018005612 TPR motif; other site 1166018005613 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1166018005614 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1166018005615 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1166018005616 Walker A/P-loop; other site 1166018005617 ATP binding site [chemical binding]; other site 1166018005618 Q-loop/lid; other site 1166018005619 ABC transporter signature motif; other site 1166018005620 Walker B; other site 1166018005621 D-loop; other site 1166018005622 H-loop/switch region; other site 1166018005623 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1166018005624 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 1166018005625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018005626 catalytic residue [active] 1166018005627 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1166018005628 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018005629 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018005630 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018005631 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1166018005632 putative active site [active] 1166018005633 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1166018005634 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1166018005635 beta-galactosidase; Region: BGL; TIGR03356 1166018005636 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 1166018005637 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1166018005638 active site 1166018005639 catalytic site [active] 1166018005640 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 1166018005641 homotrimer interaction site [polypeptide binding]; other site 1166018005642 putative active site [active] 1166018005643 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1166018005644 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1166018005645 Walker A motif; other site 1166018005646 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; cl17442 1166018005647 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 1166018005648 protein-splicing catalytic site; other site 1166018005649 thioester formation/cholesterol transfer; other site 1166018005650 replicative DNA helicase; Region: DnaB; TIGR00665 1166018005651 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 1166018005652 ATP binding site [chemical binding]; other site 1166018005653 Walker B motif; other site 1166018005654 DNA binding loops [nucleotide binding] 1166018005655 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1166018005656 PhoH-like protein; Region: PhoH; pfam02562 1166018005657 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 1166018005658 active site 1166018005659 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018005660 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1166018005661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018005662 Coenzyme A binding pocket [chemical binding]; other site 1166018005663 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1166018005664 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1166018005665 Competence protein; Region: Competence; pfam03772 1166018005666 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 1166018005667 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1166018005668 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 1166018005669 protein binding site [polypeptide binding]; other site 1166018005670 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1166018005671 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 1166018005672 putative active site [active] 1166018005673 catalytic site [active] 1166018005674 putative metal binding site [ion binding]; other site 1166018005675 oligomer interface [polypeptide binding]; other site 1166018005676 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 1166018005677 PEGA domain; Region: PEGA; pfam08308 1166018005678 Short C-terminal domain; Region: SHOCT; pfam09851 1166018005679 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 1166018005680 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1166018005681 putative active site [active] 1166018005682 catalytic triad [active] 1166018005683 putative dimer interface [polypeptide binding]; other site 1166018005684 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1166018005685 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1166018005686 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1166018005687 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1166018005688 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 1166018005689 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1166018005690 interface (dimer of trimers) [polypeptide binding]; other site 1166018005691 Substrate-binding/catalytic site; other site 1166018005692 Zn-binding sites [ion binding]; other site 1166018005693 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1166018005694 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 1166018005695 dimerization interface [polypeptide binding]; other site 1166018005696 active site 1166018005697 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1166018005698 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1166018005699 putative acyl-acceptor binding pocket; other site 1166018005700 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 1166018005701 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 1166018005702 homodimer interface [polypeptide binding]; other site 1166018005703 putative substrate binding pocket [chemical binding]; other site 1166018005704 diiron center [ion binding]; other site 1166018005705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018005706 short chain dehydrogenase; Provisional; Region: PRK05650 1166018005707 NAD(P) binding site [chemical binding]; other site 1166018005708 active site 1166018005709 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1166018005710 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1166018005711 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1166018005712 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1166018005713 putative metal binding site [ion binding]; other site 1166018005714 Protein of unknown function DUF72; Region: DUF72; pfam01904 1166018005715 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 1166018005716 HNH endonuclease; Region: HNH_2; pfam13391 1166018005717 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1166018005718 putative active site [active] 1166018005719 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1166018005720 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1166018005721 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1166018005722 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 1166018005723 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018005724 putative substrate translocation pore; other site 1166018005725 Uncharacterized conserved protein [Function unknown]; Region: COG3538 1166018005726 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 1166018005727 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 1166018005728 SusE outer membrane protein; Region: SusE; pfam14292 1166018005729 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018005730 SusD family; Region: SusD; pfam07980 1166018005731 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018005732 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018005733 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018005734 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018005735 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1166018005736 FecR protein; Region: FecR; pfam04773 1166018005737 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1166018005738 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018005739 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 1166018005740 DNA binding residues [nucleotide binding] 1166018005741 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1166018005742 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1166018005743 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1166018005744 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1166018005745 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1166018005746 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1166018005747 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018005748 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018005749 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018005750 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018005751 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1166018005752 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1166018005753 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 1166018005754 protein binding site [polypeptide binding]; other site 1166018005755 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 1166018005756 Domain interface; other site 1166018005757 Peptide binding site; other site 1166018005758 Active site tetrad [active] 1166018005759 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 1166018005760 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...; Region: RuvC_resolvase; cd00529 1166018005761 active site 1166018005762 putative DNA-binding cleft [nucleotide binding]; other site 1166018005763 dimer interface [polypeptide binding]; other site 1166018005764 XisI protein; Region: XisI; pfam08869 1166018005765 XisH protein; Region: XisH; pfam08814 1166018005766 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1166018005767 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018005768 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018005769 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018005770 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1166018005771 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018005772 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018005773 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 1166018005774 Na binding site [ion binding]; other site 1166018005775 putative glycosylation site [posttranslational modification]; other site 1166018005776 putative glycosylation site [posttranslational modification]; other site 1166018005777 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1166018005778 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1166018005779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018005780 Walker A/P-loop; other site 1166018005781 ATP binding site [chemical binding]; other site 1166018005782 Q-loop/lid; other site 1166018005783 ABC transporter signature motif; other site 1166018005784 Walker B; other site 1166018005785 D-loop; other site 1166018005786 H-loop/switch region; other site 1166018005787 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1166018005788 active site 1166018005789 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1166018005790 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 1166018005791 active site 1166018005792 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1166018005793 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1166018005794 NodB motif; other site 1166018005795 active site 1166018005796 catalytic site [active] 1166018005797 metal binding site [ion binding]; metal-binding site 1166018005798 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1166018005799 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 1166018005800 active site 1166018005801 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1166018005802 GAF domain; Region: GAF; pfam01590 1166018005803 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1166018005804 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 1166018005805 FeS/SAM binding site; other site 1166018005806 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1166018005807 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1166018005808 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1166018005809 proposed catalytic triad [active] 1166018005810 conserved cys residue [active] 1166018005811 AAA ATPase domain; Region: AAA_16; pfam13191 1166018005812 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018005813 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018005814 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018005815 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1166018005816 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1166018005817 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1166018005818 Probable Catalytic site; other site 1166018005819 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1166018005820 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1166018005821 substrate binding pocket [chemical binding]; other site 1166018005822 chain length determination region; other site 1166018005823 substrate-Mg2+ binding site; other site 1166018005824 catalytic residues [active] 1166018005825 aspartate-rich region 1; other site 1166018005826 active site lid residues [active] 1166018005827 aspartate-rich region 2; other site 1166018005828 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1166018005829 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018005830 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 1166018005831 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1166018005832 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1166018005833 active site 1166018005834 metal binding site [ion binding]; metal-binding site 1166018005835 Fungalysin metallopeptidase (M36); Region: Peptidase_M36; pfam02128 1166018005836 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 1166018005837 Zn binding site [ion binding]; other site 1166018005838 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1166018005839 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1166018005840 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1166018005841 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1166018005842 active site 1166018005843 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1166018005844 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1166018005845 Outer membrane efflux protein; Region: OEP; pfam02321 1166018005846 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1166018005847 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 1166018005848 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018005849 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1166018005850 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018005851 FtsX-like permease family; Region: FtsX; pfam02687 1166018005852 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 1166018005853 four helix bundle protein; Region: TIGR02436 1166018005854 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1166018005855 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1166018005856 Walker A/P-loop; other site 1166018005857 ATP binding site [chemical binding]; other site 1166018005858 Q-loop/lid; other site 1166018005859 ABC transporter signature motif; other site 1166018005860 Walker B; other site 1166018005861 D-loop; other site 1166018005862 H-loop/switch region; other site 1166018005863 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1166018005864 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1166018005865 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1166018005866 G1 box; other site 1166018005867 GTP/Mg2+ binding site [chemical binding]; other site 1166018005868 Switch I region; other site 1166018005869 G2 box; other site 1166018005870 Switch II region; other site 1166018005871 G3 box; other site 1166018005872 G4 box; other site 1166018005873 G5 box; other site 1166018005874 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1166018005875 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 1166018005876 putative hydrolase; Provisional; Region: PRK02113 1166018005877 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1166018005878 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018005879 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 1166018005880 active site 1166018005881 phosphorylation site [posttranslational modification] 1166018005882 intermolecular recognition site; other site 1166018005883 dimerization interface [polypeptide binding]; other site 1166018005884 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 1166018005885 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 1166018005886 PAS domain; Region: PAS_9; pfam13426 1166018005887 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 1166018005888 putative active site [active] 1166018005889 heme pocket [chemical binding]; other site 1166018005890 PAS domain S-box; Region: sensory_box; TIGR00229 1166018005891 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 1166018005892 putative active site [active] 1166018005893 heme pocket [chemical binding]; other site 1166018005894 GAF domain; Region: GAF_2; pfam13185 1166018005895 GAF domain; Region: GAF; pfam01590 1166018005896 PAS domain S-box; Region: sensory_box; TIGR00229 1166018005897 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1166018005898 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 1166018005899 putative active site [active] 1166018005900 heme pocket [chemical binding]; other site 1166018005901 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 1166018005902 dimer interface [polypeptide binding]; other site 1166018005903 phosphorylation site [posttranslational modification] 1166018005904 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 1166018005905 ATP binding site [chemical binding]; other site 1166018005906 Mg2+ binding site [ion binding]; other site 1166018005907 G-X-G motif; other site 1166018005908 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018005909 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 1166018005910 active site 1166018005911 phosphorylation site [posttranslational modification] 1166018005912 intermolecular recognition site; other site 1166018005913 dimerization interface [polypeptide binding]; other site 1166018005914 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 1166018005915 putative binding surface; other site 1166018005916 active site 1166018005917 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1166018005918 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1166018005919 transmembrane helices; other site 1166018005920 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 1166018005921 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018005922 putative substrate translocation pore; other site 1166018005923 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018005924 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 1166018005925 dimerization interface [polypeptide binding]; other site 1166018005926 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1166018005927 dimer interface [polypeptide binding]; other site 1166018005928 phosphorylation site [posttranslational modification] 1166018005929 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 1166018005930 ATP binding site [chemical binding]; other site 1166018005931 G-X-G motif; other site 1166018005932 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018005933 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 1166018005934 active site 1166018005935 phosphorylation site [posttranslational modification] 1166018005936 intermolecular recognition site; other site 1166018005937 dimerization interface [polypeptide binding]; other site 1166018005938 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 1166018005939 DNA binding site [nucleotide binding] 1166018005940 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 1166018005941 DNA binding site [nucleotide binding] 1166018005942 active site 1166018005943 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 1166018005944 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 1166018005945 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 1166018005946 metal ion-dependent adhesion site (MIDAS); other site 1166018005947 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 1166018005948 oligomerisation interface [polypeptide binding]; other site 1166018005949 mobile loop; other site 1166018005950 roof hairpin; other site 1166018005951 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1166018005952 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 1166018005953 ring oligomerisation interface [polypeptide binding]; other site 1166018005954 ATP/Mg binding site [chemical binding]; other site 1166018005955 stacking interactions; other site 1166018005956 hinge regions; other site 1166018005957 Family of unknown function (DUF706); Region: DUF706; pfam05153 1166018005958 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1166018005959 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1166018005960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1166018005961 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1166018005962 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1166018005963 Putative zinc ribbon domain; Region: DUF164; pfam02591 1166018005964 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1166018005965 Protein of unknown function DUF58; Region: DUF58; pfam01882 1166018005966 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1166018005967 metal ion-dependent adhesion site (MIDAS); other site 1166018005968 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1166018005969 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1166018005970 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 1166018005971 GTP-binding protein YchF; Reviewed; Region: PRK09601 1166018005972 YchF GTPase; Region: YchF; cd01900 1166018005973 G1 box; other site 1166018005974 GTP/Mg2+ binding site [chemical binding]; other site 1166018005975 Switch I region; other site 1166018005976 G2 box; other site 1166018005977 Switch II region; other site 1166018005978 G3 box; other site 1166018005979 G4 box; other site 1166018005980 G5 box; other site 1166018005981 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 1166018005982 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018005983 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018005984 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 1166018005985 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1166018005986 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018005987 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018005988 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1166018005989 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1166018005990 active site 1166018005991 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018005992 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018005993 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 1166018005994 DNA binding residues [nucleotide binding] 1166018005995 PQQ-like domain; Region: PQQ_2; pfam13360 1166018005996 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 1166018005997 structural tetrad; other site 1166018005998 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 1166018005999 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 1166018006000 active site 1166018006001 catalytic triad [active] 1166018006002 oxyanion hole [active] 1166018006003 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1166018006004 Cellulose binding domain; Region: CBM_3; smart01067 1166018006005 Cellulose binding domain; Region: CBM_3; pfam00942 1166018006006 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018006007 SusD family; Region: SusD; pfam07980 1166018006008 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018006009 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006010 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018006011 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1166018006012 Two component regulator propeller; Region: Reg_prop; pfam07494 1166018006013 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1166018006014 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018006015 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 1166018006016 ATP binding site [chemical binding]; other site 1166018006017 Mg2+ binding site [ion binding]; other site 1166018006018 G-X-G motif; other site 1166018006019 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018006020 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 1166018006021 active site 1166018006022 phosphorylation site [posttranslational modification] 1166018006023 intermolecular recognition site; other site 1166018006024 dimerization interface [polypeptide binding]; other site 1166018006025 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018006026 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018006027 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1166018006028 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1166018006029 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1166018006030 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018006031 Beta-lactamase; Region: Beta-lactamase; cl17358 1166018006032 Members of the SGNH-hydrolase superfamily, 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_like_1; cd01832 1166018006033 active site 1166018006034 catalytic triad [active] 1166018006035 oxyanion hole [active] 1166018006036 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1166018006037 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1166018006038 homodimer interface [polypeptide binding]; other site 1166018006039 metal binding site [ion binding]; metal-binding site 1166018006040 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1166018006041 homodimer interface [polypeptide binding]; other site 1166018006042 active site 1166018006043 putative chemical substrate binding site [chemical binding]; other site 1166018006044 metal binding site [ion binding]; metal-binding site 1166018006045 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 1166018006046 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018006047 putative substrate translocation pore; other site 1166018006048 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1166018006049 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1166018006050 DXD motif; other site 1166018006051 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 1166018006052 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1166018006053 short chain dehydrogenase; Provisional; Region: PRK07454 1166018006054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018006055 NAD(P) binding site [chemical binding]; other site 1166018006056 active site 1166018006057 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1166018006058 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 1166018006059 catalytic residues [active] 1166018006060 catalytic nucleophile [active] 1166018006061 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 1166018006062 binding surface 1166018006063 TPR motif; other site 1166018006064 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 1166018006065 HEAT repeats; Region: HEAT_2; pfam13646 1166018006066 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1166018006067 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1166018006068 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 1166018006069 ligand binding site [chemical binding]; other site 1166018006070 flexible hinge region; other site 1166018006071 Domain of unknown function (DUF4267); Region: DUF4267; pfam14087 1166018006072 CHC2 zinc finger; Region: zf-CHC2; cl17510 1166018006073 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 1166018006074 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1166018006075 tandem repeat interface [polypeptide binding]; other site 1166018006076 oligomer interface [polypeptide binding]; other site 1166018006077 active site residues [active] 1166018006078 ParB-like nuclease domain; Region: ParBc; cl02129 1166018006079 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1166018006080 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 1166018006081 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1166018006082 Phage terminase large subunit; Region: Terminase_3; cl12054 1166018006083 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; cl08294 1166018006084 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 1166018006085 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1166018006086 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 1166018006087 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1166018006088 active site 1166018006089 DNA binding site [nucleotide binding] 1166018006090 Int/Topo IB signature motif; other site 1166018006091 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 1166018006092 PAS domain; Region: PAS_9; pfam13426 1166018006093 putative active site [active] 1166018006094 heme pocket [chemical binding]; other site 1166018006095 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 1166018006096 16S/18S rRNA binding site [nucleotide binding]; other site 1166018006097 S13e-L30e interaction site [polypeptide binding]; other site 1166018006098 25S rRNA binding site [nucleotide binding]; other site 1166018006099 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1166018006100 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1166018006101 RNase E interface [polypeptide binding]; other site 1166018006102 trimer interface [polypeptide binding]; other site 1166018006103 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1166018006104 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1166018006105 RNase E interface [polypeptide binding]; other site 1166018006106 trimer interface [polypeptide binding]; other site 1166018006107 active site 1166018006108 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 1166018006109 putative nucleic acid binding region [nucleotide binding]; other site 1166018006110 G-X-X-G motif; other site 1166018006111 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 1166018006112 RNA binding site [nucleotide binding]; other site 1166018006113 domain interface; other site 1166018006114 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 1166018006115 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1166018006116 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018006117 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1166018006118 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 1166018006119 DNA binding residues [nucleotide binding] 1166018006120 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 1166018006121 active site 1166018006122 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018006123 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018006124 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1166018006125 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018006126 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 1166018006127 DNA binding residues [nucleotide binding] 1166018006128 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1166018006129 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1166018006130 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1166018006131 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 1166018006132 Putative esterase; Region: Esterase; pfam00756 1166018006133 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1166018006134 N-terminal Early set domain associated with the catalytic domain of esterase; Region: E_set_Esterase_N; cd02858 1166018006135 Putative esterase; Region: Esterase; pfam00756 1166018006136 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1166018006137 N-terminal Early set domain associated with the catalytic domain of esterase; Region: E_set_Esterase_N; cd02858 1166018006138 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1166018006139 Putative esterase; Region: Esterase; pfam00756 1166018006140 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 1166018006141 N-terminal Early set domain associated with the catalytic domain of esterase; Region: E_set_Esterase_N; cd02858 1166018006142 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1166018006143 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1166018006144 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 1166018006145 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1166018006146 Putative esterase; Region: Esterase; pfam00756 1166018006147 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 1166018006148 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1166018006149 Putative esterase; Region: Esterase; pfam00756 1166018006150 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1166018006151 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 1166018006152 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1166018006153 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 1166018006154 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1166018006155 sugar binding site [chemical binding]; other site 1166018006156 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 1166018006157 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1166018006158 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018006159 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1166018006160 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1166018006161 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1166018006162 active site 1166018006163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1166018006164 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 1166018006165 ligand binding site [chemical binding]; other site 1166018006166 metal binding site [ion binding]; metal-binding site 1166018006167 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 1166018006168 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 1166018006169 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 1166018006170 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 1166018006171 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1166018006172 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 1166018006173 active site 1166018006174 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1166018006175 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018006176 active site 1166018006177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1166018006178 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 1166018006179 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1166018006180 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1166018006181 inhibitor binding site; inhibition site 1166018006182 active site 1166018006183 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1166018006184 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1166018006185 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018006186 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 1166018006187 dimer interface [polypeptide binding]; other site 1166018006188 phosphorylation site [posttranslational modification] 1166018006189 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 1166018006190 ATP binding site [chemical binding]; other site 1166018006191 Mg2+ binding site [ion binding]; other site 1166018006192 G-X-G motif; other site 1166018006193 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018006194 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 1166018006195 active site 1166018006196 phosphorylation site [posttranslational modification] 1166018006197 intermolecular recognition site; other site 1166018006198 dimerization interface [polypeptide binding]; other site 1166018006199 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018006200 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 1166018006201 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 1166018006202 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 1166018006203 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 1166018006204 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018006205 SusD family; Region: SusD; pfam07980 1166018006206 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006207 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018006208 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018006209 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018006210 SusD family; Region: SusD; pfam07980 1166018006211 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018006212 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006213 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018006214 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018006215 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018006216 SusD family; Region: SusD; pfam07980 1166018006217 Secretin and TonB N terminus short domain; Region: STN; pfam07660 1166018006218 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018006219 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006220 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018006221 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018006222 FecR protein; Region: FecR; pfam04773 1166018006223 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018006224 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018006225 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 1166018006226 DNA binding residues [nucleotide binding] 1166018006227 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1166018006228 nudix motif; other site 1166018006229 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1166018006230 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1166018006231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018006232 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 1166018006233 DNA binding residues [nucleotide binding] 1166018006234 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1166018006235 FecR protein; Region: FecR; pfam04773 1166018006236 Secretin and TonB N terminus short domain; Region: STN; pfam07660 1166018006237 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018006238 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006239 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018006240 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018006241 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 1166018006242 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018006243 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1166018006244 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1166018006245 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1166018006246 active site 1166018006247 metal binding site [ion binding]; metal-binding site 1166018006248 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 1166018006249 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1166018006250 ligand binding site [chemical binding]; other site 1166018006251 flexible hinge region; other site 1166018006252 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018006253 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 1166018006254 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 1166018006255 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018006256 catalytic residues [active] 1166018006257 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1166018006258 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 1166018006259 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1166018006260 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1166018006261 nucleotide binding site [chemical binding]; other site 1166018006262 EamA-like transporter family; Region: EamA; cl17759 1166018006263 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1166018006264 EamA-like transporter family; Region: EamA; cl17759 1166018006265 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1166018006266 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 1166018006267 dimer interface [polypeptide binding]; other site 1166018006268 active site 1166018006269 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1166018006270 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 1166018006271 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1166018006272 DNA-binding site [nucleotide binding]; DNA binding site 1166018006273 UTRA domain; Region: UTRA; pfam07702 1166018006274 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1166018006275 classical (c) SDRs; Region: SDR_c; cd05233 1166018006276 NAD(P) binding site [chemical binding]; other site 1166018006277 active site 1166018006278 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1166018006279 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1166018006280 nucleotide binding site [chemical binding]; other site 1166018006281 hypothetical protein; Provisional; Region: PRK02947 1166018006282 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1166018006283 putative active site [active] 1166018006284 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1166018006285 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 1166018006286 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 1166018006287 active site 1166018006288 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018006289 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018006290 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018006291 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018006292 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018006293 Glycosyl hydrolase family 10; Region: Glyco_10; smart00633 1166018006294 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018006295 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018006296 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018006297 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018006298 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1166018006299 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018006300 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018006301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018006302 Melibiase; Region: Melibiase; pfam02065 1166018006303 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1166018006304 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018006305 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 1166018006306 DNA binding residues [nucleotide binding] 1166018006307 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1166018006308 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1166018006309 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1166018006310 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1166018006311 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018006312 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018006313 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1166018006314 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1166018006315 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1166018006316 substrate binding site [chemical binding]; other site 1166018006317 dimer interface [polypeptide binding]; other site 1166018006318 ATP binding site [chemical binding]; other site 1166018006319 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1166018006320 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018006321 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 1166018006322 DNA binding residues [nucleotide binding] 1166018006323 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1166018006324 FecR protein; Region: FecR; pfam04773 1166018006325 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018006326 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006327 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018006328 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018006329 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018006330 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018006331 SusD family; Region: SusD; pfam07980 1166018006332 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018006333 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018006334 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018006335 SusD family; Region: SusD; pfam07980 1166018006336 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1166018006337 WxcM-like, C-terminal; Region: FdtA; pfam05523 1166018006338 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1166018006339 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1166018006340 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1166018006341 Right handed beta helix region; Region: Beta_helix; pfam13229 1166018006342 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018006343 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 1166018006344 DNA binding residues [nucleotide binding] 1166018006345 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1166018006346 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1166018006347 Bacterial transcriptional regulator; Region: IclR; pfam01614 1166018006348 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 1166018006349 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1166018006350 NADP binding site [chemical binding]; other site 1166018006351 homodimer interface [polypeptide binding]; other site 1166018006352 active site 1166018006353 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018006354 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006355 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018006356 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018006357 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018006358 SusD family; Region: SusD; pfam07980 1166018006359 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1166018006360 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 1166018006361 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 1166018006362 Na binding site [ion binding]; other site 1166018006363 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1166018006364 classical (c) SDRs; Region: SDR_c; cd05233 1166018006365 NAD(P) binding site [chemical binding]; other site 1166018006366 active site 1166018006367 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1166018006368 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 1166018006369 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018006370 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1166018006371 active site 1166018006372 metal binding site [ion binding]; metal-binding site 1166018006373 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1166018006374 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1166018006375 NAD(P) binding site [chemical binding]; other site 1166018006376 enoyl-CoA hydratase; Provisional; Region: PRK06688 1166018006377 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 1166018006378 substrate binding site [chemical binding]; other site 1166018006379 oxyanion hole (OAH) forming residues; other site 1166018006380 trimer interface [polypeptide binding]; other site 1166018006381 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1166018006382 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 1166018006383 active site 1166018006384 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1166018006385 Domain of unknown function DUF11; Region: DUF11; pfam01345 1166018006386 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1166018006387 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1166018006388 Walker A/P-loop; other site 1166018006389 ATP binding site [chemical binding]; other site 1166018006390 Q-loop/lid; other site 1166018006391 ABC transporter signature motif; other site 1166018006392 Walker B; other site 1166018006393 D-loop; other site 1166018006394 H-loop/switch region; other site 1166018006395 FeS assembly protein SufD; Region: sufD; TIGR01981 1166018006396 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1166018006397 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1166018006398 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1166018006399 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1166018006400 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 1166018006401 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018006402 catalytic residue [active] 1166018006403 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1166018006404 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 1166018006405 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1166018006406 active site 1166018006407 catalytic tetrad [active] 1166018006408 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 1166018006409 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018006410 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 1166018006411 DNA binding residues [nucleotide binding] 1166018006412 dimerization interface [polypeptide binding]; other site 1166018006413 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1166018006414 classical (c) SDRs; Region: SDR_c; cd05233 1166018006415 NAD(P) binding site [chemical binding]; other site 1166018006416 active site 1166018006417 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018006418 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018006419 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018006420 HlyD family secretion protein; Region: HlyD; pfam00529 1166018006421 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018006422 Outer membrane efflux protein; Region: OEP; pfam02321 1166018006423 Outer membrane efflux protein; Region: OEP; pfam02321 1166018006424 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1166018006425 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1166018006426 acyl-activating enzyme (AAE) consensus motif; other site 1166018006427 AMP binding site [chemical binding]; other site 1166018006428 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1166018006429 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1166018006430 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1166018006431 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1166018006432 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1166018006433 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018006434 catalytic residue [active] 1166018006435 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1166018006436 Fe-S metabolism associated domain; Region: SufE; cl00951 1166018006437 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1166018006438 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 1166018006439 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018006440 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1166018006441 Cation efflux family; Region: Cation_efflux; pfam01545 1166018006442 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 1166018006443 ADP-ribose binding site [chemical binding]; other site 1166018006444 dimer interface [polypeptide binding]; other site 1166018006445 active site 1166018006446 nudix motif; other site 1166018006447 metal binding site [ion binding]; metal-binding site 1166018006448 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1166018006449 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1166018006450 Domain of unknown function (DUF377); Region: DUF377; pfam04041 1166018006451 active site 1166018006452 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1166018006453 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1166018006454 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018006455 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018006456 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018006457 ligand binding site [chemical binding]; other site 1166018006458 EamA-like transporter family; Region: EamA; pfam00892 1166018006459 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1166018006460 EamA-like transporter family; Region: EamA; pfam00892 1166018006461 NAD+ synthase (glutamine-hydrolysing); Region: PLN02339 1166018006462 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1166018006463 multimer interface [polypeptide binding]; other site 1166018006464 active site 1166018006465 catalytic triad [active] 1166018006466 protein interface 1 [polypeptide binding]; other site 1166018006467 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 1166018006468 homodimer interface [polypeptide binding]; other site 1166018006469 NAD binding pocket [chemical binding]; other site 1166018006470 ATP binding pocket [chemical binding]; other site 1166018006471 Mg binding site [ion binding]; other site 1166018006472 active-site loop [active] 1166018006473 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1166018006474 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 1166018006475 N-terminal plug; other site 1166018006476 ligand-binding site [chemical binding]; other site 1166018006477 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 1166018006478 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 1166018006479 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1166018006480 putative hemin binding site; other site 1166018006481 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 1166018006482 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1166018006483 ABC-ATPase subunit interface; other site 1166018006484 dimer interface [polypeptide binding]; other site 1166018006485 putative PBP binding regions; other site 1166018006486 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1166018006487 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1166018006488 Walker A/P-loop; other site 1166018006489 ATP binding site [chemical binding]; other site 1166018006490 Q-loop/lid; other site 1166018006491 ABC transporter signature motif; other site 1166018006492 Walker B; other site 1166018006493 D-loop; other site 1166018006494 H-loop/switch region; other site 1166018006495 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1166018006496 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1166018006497 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1166018006498 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 1166018006499 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1166018006500 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 1166018006501 motif II; other site 1166018006502 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018006503 PAS domain; Region: PAS_9; pfam13426 1166018006504 PAS domain; Region: PAS_9; pfam13426 1166018006505 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 1166018006506 putative active site [active] 1166018006507 heme pocket [chemical binding]; other site 1166018006508 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1166018006509 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 1166018006510 dimer interface [polypeptide binding]; other site 1166018006511 phosphorylation site [posttranslational modification] 1166018006512 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 1166018006513 ATP binding site [chemical binding]; other site 1166018006514 Mg2+ binding site [ion binding]; other site 1166018006515 G-X-G motif; other site 1166018006516 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1166018006517 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1166018006518 acyl-activating enzyme (AAE) consensus motif; other site 1166018006519 putative AMP binding site [chemical binding]; other site 1166018006520 putative active site [active] 1166018006521 putative CoA binding site [chemical binding]; other site 1166018006522 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1166018006523 C-terminal peptidase (prc); Region: prc; TIGR00225 1166018006524 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 1166018006525 protein binding site [polypeptide binding]; other site 1166018006526 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1166018006527 Catalytic dyad [active] 1166018006528 signal recognition particle protein; Provisional; Region: PRK10867 1166018006529 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1166018006530 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 1166018006531 P loop; other site 1166018006532 GTP binding site [chemical binding]; other site 1166018006533 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1166018006534 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1166018006535 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 1166018006536 protein binding site [polypeptide binding]; other site 1166018006537 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 1166018006538 Catalytic dyad [active] 1166018006539 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018006540 Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]; Region: PurM; COG0150 1166018006541 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1166018006542 dimerization interface [polypeptide binding]; other site 1166018006543 ATP binding site [chemical binding]; other site 1166018006544 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018006545 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018006546 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018006547 Protein of unknown function, DUF481; Region: DUF481; cl01213 1166018006548 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1166018006549 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1166018006550 putative catalytic site [active] 1166018006551 putative metal binding site [ion binding]; other site 1166018006552 putative phosphate binding site [ion binding]; other site 1166018006553 AIR carboxylase; Region: AIRC; pfam00731 1166018006554 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018006555 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018006556 Surface antigen; Region: Bac_surface_Ag; pfam01103 1166018006557 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1166018006558 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1166018006559 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1166018006560 putative active site [active] 1166018006561 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1166018006562 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1166018006563 FtsX-like permease family; Region: FtsX; pfam02687 1166018006564 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1166018006565 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1166018006566 Walker A/P-loop; other site 1166018006567 ATP binding site [chemical binding]; other site 1166018006568 Q-loop/lid; other site 1166018006569 ABC transporter signature motif; other site 1166018006570 Walker B; other site 1166018006571 D-loop; other site 1166018006572 H-loop/switch region; other site 1166018006573 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1166018006574 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 1166018006575 active site 1166018006576 catalytic triad [active] 1166018006577 oxyanion hole [active] 1166018006578 switch loop; other site 1166018006579 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 1166018006580 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1166018006581 substrate binding [chemical binding]; other site 1166018006582 active site 1166018006583 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1166018006584 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 1166018006585 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 1166018006586 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1166018006587 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1166018006588 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1166018006589 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1166018006590 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018006591 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018006592 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006593 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018006594 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018006595 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 1166018006596 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006597 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018006598 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018006599 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 1166018006600 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1166018006601 maltose O-acetyltransferase; Provisional; Region: PRK10092 1166018006602 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1166018006603 trimer interface [polypeptide binding]; other site 1166018006604 active site 1166018006605 substrate binding site [chemical binding]; other site 1166018006606 CoA binding site [chemical binding]; other site 1166018006607 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1166018006608 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1166018006609 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018006610 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1166018006611 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1166018006612 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1166018006613 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 1166018006614 catalytic loop [active] 1166018006615 iron binding site [ion binding]; other site 1166018006616 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1166018006617 Uncharacterized conserved protein [Function unknown]; Region: COG4925 1166018006618 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1166018006619 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018006620 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018006621 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 1166018006622 Chorismate mutase type II; Region: CM_2; smart00830 1166018006623 Nuclease-related domain; Region: NERD; pfam08378 1166018006624 proline dehydrogenase; Region: PLN02681 1166018006625 lipoprotein signal peptidase; Provisional; Region: PRK14788 1166018006626 lipoprotein signal peptidase; Provisional; Region: PRK14787 1166018006627 Predicted acyl esterases [General function prediction only]; Region: COG2936 1166018006628 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1166018006629 M28 Zn-peptidase Endoplasmic reticulum metallopeptidase 1; Region: M28_Fxna_like; cd03875 1166018006630 Peptidase family M28; Region: Peptidase_M28; pfam04389 1166018006631 metal binding site [ion binding]; metal-binding site 1166018006632 WbqC-like protein family; Region: WbqC; pfam08889 1166018006633 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1166018006634 Clp amino terminal domain; Region: Clp_N; pfam02861 1166018006635 Clp amino terminal domain; Region: Clp_N; pfam02861 1166018006636 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 1166018006637 Walker A motif; other site 1166018006638 ATP binding site [chemical binding]; other site 1166018006639 Walker B motif; other site 1166018006640 arginine finger; other site 1166018006641 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 1166018006642 Walker A motif; other site 1166018006643 ATP binding site [chemical binding]; other site 1166018006644 Walker B motif; other site 1166018006645 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1166018006646 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1166018006647 FAD binding domain; Region: FAD_binding_4; pfam01565 1166018006648 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1166018006649 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1166018006650 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar3; cd08577 1166018006651 putative active site [active] 1166018006652 catalytic site [active] 1166018006653 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 1166018006654 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018006655 catalytic residues [active] 1166018006656 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018006657 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018006658 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 1166018006659 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1166018006660 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1166018006661 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018006662 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 1166018006663 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018006664 HEAT repeats; Region: HEAT_2; pfam13646 1166018006665 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1166018006666 Cytochrome c; Region: Cytochrom_C; pfam00034 1166018006667 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018006668 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 1166018006669 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1166018006670 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 1166018006671 ATP binding site [chemical binding]; other site 1166018006672 Mg2+ binding site [ion binding]; other site 1166018006673 G-X-G motif; other site 1166018006674 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 1166018006675 anchoring element; other site 1166018006676 dimer interface [polypeptide binding]; other site 1166018006677 ATP binding site [chemical binding]; other site 1166018006678 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 1166018006679 active site 1166018006680 putative metal-binding site [ion binding]; other site 1166018006681 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1166018006682 polyphosphate kinase; Provisional; Region: PRK05443 1166018006683 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1166018006684 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1166018006685 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1166018006686 putative domain interface [polypeptide binding]; other site 1166018006687 putative active site [active] 1166018006688 catalytic site [active] 1166018006689 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1166018006690 putative domain interface [polypeptide binding]; other site 1166018006691 putative active site [active] 1166018006692 catalytic site [active] 1166018006693 Putative restriction endonuclease; Region: Uma2; pfam05685 1166018006694 Family description; Region: DsbD_2; pfam13386 1166018006695 FixH; Region: FixH; pfam05751 1166018006696 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1166018006697 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1166018006698 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1166018006699 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1166018006700 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1166018006701 Cytochrome c; Region: Cytochrom_C; pfam00034 1166018006702 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 1166018006703 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 1166018006704 Low-spin heme binding site [chemical binding]; other site 1166018006705 Putative water exit pathway; other site 1166018006706 Binuclear center (active site) [active] 1166018006707 Putative proton exit pathway; other site 1166018006708 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1166018006709 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1166018006710 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1166018006711 heme-binding site [chemical binding]; other site 1166018006712 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 1166018006713 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1166018006714 Di-iron ligands [ion binding]; other site 1166018006715 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 1166018006716 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1166018006717 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 1166018006718 FeS/SAM binding site; other site 1166018006719 HemN C-terminal domain; Region: HemN_C; pfam06969 1166018006720 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1166018006721 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1166018006722 Heavy-metal-associated domain; Region: HMA; pfam00403 1166018006723 metal-binding site [ion binding] 1166018006724 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1166018006725 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 1166018006726 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 1166018006727 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 1166018006728 active site 1166018006729 SnoaL-like domain; Region: SnoaL_2; pfam12680 1166018006730 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1166018006731 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1166018006732 Nucleoside recognition; Region: Gate; pfam07670 1166018006733 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1166018006734 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1166018006735 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1166018006736 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1166018006737 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018006738 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006739 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018006740 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018006741 SusD family; Region: SusD; pfam07980 1166018006742 Family description; Region: VCBS; pfam13517 1166018006743 Family description; Region: VCBS; pfam13517 1166018006744 Family description; Region: VCBS; pfam13517 1166018006745 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 1166018006746 Family description; Region: VCBS; pfam13517 1166018006747 Family description; Region: VCBS; pfam13517 1166018006748 Family description; Region: VCBS; pfam13517 1166018006749 Family description; Region: VCBS; pfam13517 1166018006750 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 1166018006751 salt bridge; other site 1166018006752 non-specific DNA binding site [nucleotide binding]; other site 1166018006753 sequence-specific DNA binding site [nucleotide binding]; other site 1166018006754 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1166018006755 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1166018006756 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1166018006757 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1166018006758 active site 1166018006759 substrate binding site [chemical binding]; other site 1166018006760 metal binding site [ion binding]; metal-binding site 1166018006761 Predicted membrane protein [Function unknown]; Region: COG4270 1166018006762 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 1166018006763 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1166018006764 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1166018006765 active site 1166018006766 catalytic site [active] 1166018006767 substrate binding site [chemical binding]; other site 1166018006768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018006769 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1166018006770 NAD(P) binding site [chemical binding]; other site 1166018006771 active site 1166018006772 SnoaL-like domain; Region: SnoaL_2; pfam12680 1166018006773 Predicted transcriptional regulator [Transcription]; Region: COG2378 1166018006774 HTH domain; Region: HTH_11; pfam08279 1166018006775 WYL domain; Region: WYL; pfam13280 1166018006776 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 1166018006777 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006778 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018006779 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018006780 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1166018006781 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018006782 Coenzyme A binding pocket [chemical binding]; other site 1166018006783 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1166018006784 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 1166018006785 RNA binding surface [nucleotide binding]; other site 1166018006786 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1166018006787 active site 1166018006788 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1166018006789 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 1166018006790 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018006791 catalytic residue [active] 1166018006792 CHASE3 domain; Region: CHASE3; pfam05227 1166018006793 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 1166018006794 dimer interface [polypeptide binding]; other site 1166018006795 phosphorylation site [posttranslational modification] 1166018006796 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 1166018006797 ATP binding site [chemical binding]; other site 1166018006798 Mg2+ binding site [ion binding]; other site 1166018006799 G-X-G motif; other site 1166018006800 Predicted membrane protein [Function unknown]; Region: COG2323 1166018006801 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1166018006802 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1166018006803 active site pocket [active] 1166018006804 putative dimer interface [polypeptide binding]; other site 1166018006805 putative cataytic base [active] 1166018006806 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1166018006807 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 1166018006808 catalytic core [active] 1166018006809 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 1166018006810 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1166018006811 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1166018006812 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 1166018006813 dimer interface [polypeptide binding]; other site 1166018006814 phosphorylation site [posttranslational modification] 1166018006815 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 1166018006816 ATP binding site [chemical binding]; other site 1166018006817 Mg2+ binding site [ion binding]; other site 1166018006818 G-X-G motif; other site 1166018006819 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1166018006820 Fasciclin domain; Region: Fasciclin; pfam02469 1166018006821 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1166018006822 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018006823 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018006824 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1166018006825 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018006826 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 1166018006827 DNA binding residues [nucleotide binding] 1166018006828 YHYH protein; Region: YHYH; pfam14240 1166018006829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1166018006830 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 1166018006831 Cu(I) binding site [ion binding]; other site 1166018006832 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1166018006833 RNA methyltransferase, RsmE family; Region: TIGR00046 1166018006834 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1166018006835 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1166018006836 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 1166018006837 Di-iron ligands [ion binding]; other site 1166018006838 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 1166018006839 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018006840 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1166018006841 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 1166018006842 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1166018006843 Cytochrome c; Region: Cytochrom_C; cl11414 1166018006844 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018006845 PA14 domain; Region: PA14; cl08459 1166018006846 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018006847 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 1166018006848 catalytic core [active] 1166018006849 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1166018006850 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 1166018006851 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018006852 catalytic residue [active] 1166018006853 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 1166018006854 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1166018006855 active site 1166018006856 Int/Topo IB signature motif; other site 1166018006857 ethanolamine permease; Region: 2A0305; TIGR00908 1166018006858 hypothetical protein; Provisional; Region: PHA02764 1166018006859 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1166018006860 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 1166018006861 Moco binding site; other site 1166018006862 metal coordination site [ion binding]; other site 1166018006863 dimerization interface [polypeptide binding]; other site 1166018006864 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1166018006865 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 1166018006866 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 1166018006867 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 1166018006868 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1166018006869 active site 1166018006870 catalytic site [active] 1166018006871 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 1166018006872 GLPGLI family protein; Region: GLPGLI; TIGR01200 1166018006873 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018006874 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018006875 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1166018006876 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1166018006877 Probable Catalytic site; other site 1166018006878 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1166018006879 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1166018006880 active site residue [active] 1166018006881 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1166018006882 active site 1166018006883 SAM binding site [chemical binding]; other site 1166018006884 homodimer interface [polypeptide binding]; other site 1166018006885 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1166018006886 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1166018006887 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1166018006888 CHAD domain; Region: CHAD; pfam05235 1166018006889 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 1166018006890 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1166018006891 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1166018006892 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 1166018006893 catalytic loop [active] 1166018006894 iron binding site [ion binding]; other site 1166018006895 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1166018006896 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1166018006897 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1166018006898 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1166018006899 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1166018006900 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018006901 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1166018006902 classical (c) SDRs; Region: SDR_c; cd05233 1166018006903 NAD(P) binding site [chemical binding]; other site 1166018006904 active site 1166018006905 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1166018006906 Surface antigen; Region: Bac_surface_Ag; pfam01103 1166018006907 hypothetical protein; Provisional; Region: PRK08609 1166018006908 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1166018006909 metal binding triad [ion binding]; metal-binding site 1166018006910 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 1166018006911 active site 1166018006912 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018006913 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 1166018006914 active site 1166018006915 phosphorylation site [posttranslational modification] 1166018006916 intermolecular recognition site; other site 1166018006917 dimerization interface [polypeptide binding]; other site 1166018006918 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018006919 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 1166018006920 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 1166018006921 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1166018006922 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 1166018006923 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1166018006924 phosphopeptide binding site; other site 1166018006925 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 1166018006926 active site 1166018006927 Caspase domain; Region: Peptidase_C14; pfam00656 1166018006928 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1166018006929 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1166018006930 active site 1166018006931 ATP binding site [chemical binding]; other site 1166018006932 substrate binding site [chemical binding]; other site 1166018006933 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1166018006934 substrate binding site [chemical binding]; other site 1166018006935 activation loop (A-loop); other site 1166018006936 activation loop (A-loop); other site 1166018006937 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 1166018006938 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018006939 Interdomain contacts; other site 1166018006940 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1166018006941 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1166018006942 active site 1166018006943 homodimer interface [polypeptide binding]; other site 1166018006944 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; cd02883 1166018006945 nudix motif; other site 1166018006946 Trehalose utilisation; Region: ThuA; pfam06283 1166018006947 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 1166018006948 dimer interface [polypeptide binding]; other site 1166018006949 substrate binding site [chemical binding]; other site 1166018006950 metal binding sites [ion binding]; metal-binding site 1166018006951 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 1166018006952 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1166018006953 Ligand binding site; other site 1166018006954 Putative Catalytic site; other site 1166018006955 DXD motif; other site 1166018006956 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1166018006957 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1166018006958 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 1166018006959 B12 binding site [chemical binding]; other site 1166018006960 cobalt ligand [ion binding]; other site 1166018006961 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1166018006962 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 1166018006963 TraB family; Region: TraB; pfam01963 1166018006964 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1166018006965 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018006966 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1166018006967 active site 1166018006968 dinuclear metal binding site [ion binding]; other site 1166018006969 dimerization interface [polypeptide binding]; other site 1166018006970 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1166018006971 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1166018006972 HIGH motif; other site 1166018006973 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1166018006974 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1166018006975 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1166018006976 active site 1166018006977 KMSKS motif; other site 1166018006978 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1166018006979 tRNA binding surface [nucleotide binding]; other site 1166018006980 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 1166018006981 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1166018006982 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1166018006983 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1166018006984 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 1166018006985 putative active site [active] 1166018006986 heme pocket [chemical binding]; other site 1166018006987 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 1166018006988 dimer interface [polypeptide binding]; other site 1166018006989 phosphorylation site [posttranslational modification] 1166018006990 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 1166018006991 ATP binding site [chemical binding]; other site 1166018006992 Mg2+ binding site [ion binding]; other site 1166018006993 G-X-G motif; other site 1166018006994 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1166018006995 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1166018006996 active site 1166018006997 trimer interface [polypeptide binding]; other site 1166018006998 allosteric site; other site 1166018006999 active site lid [active] 1166018007000 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1166018007001 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 1166018007002 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 1166018007003 substrate binding site [chemical binding]; other site 1166018007004 ligand binding site [chemical binding]; other site 1166018007005 Mitochondrial aconitase A swivel domain. Aconitase (also known as aconitate hydratase and citrate hydro-lyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes...; Region: AcnA_Mitochon_Swivel; cd01578 1166018007006 substrate binding site [chemical binding]; other site 1166018007007 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 1166018007008 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1166018007009 metal binding site [ion binding]; metal-binding site 1166018007010 putative dimer interface [polypeptide binding]; other site 1166018007011 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018007012 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018007013 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018007014 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018007015 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018007016 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018007017 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018007018 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018007019 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018007020 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018007021 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018007022 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018007023 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018007024 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018007025 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018007026 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018007027 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018007028 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018007029 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1166018007030 ligand binding site [chemical binding]; other site 1166018007031 active site 1166018007032 UGI interface [polypeptide binding]; other site 1166018007033 catalytic site [active] 1166018007034 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1166018007035 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1166018007036 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 1166018007037 S-adenosylmethionine binding site [chemical binding]; other site 1166018007038 Copper type II ascorbate-dependent monooxygenase, C-terminal domain; Region: Cu2_monoox_C; pfam03712 1166018007039 Peptidase family M23; Region: Peptidase_M23; pfam01551 1166018007040 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018007041 Beta-lactamase; Region: Beta-lactamase; pfam00144 1166018007042 helicase 45; Provisional; Region: PTZ00424 1166018007043 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 1166018007044 ATP binding site [chemical binding]; other site 1166018007045 Mg++ binding site [ion binding]; other site 1166018007046 motif III; other site 1166018007047 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 1166018007048 nucleotide binding region [chemical binding]; other site 1166018007049 ATP-binding site [chemical binding]; other site 1166018007050 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 1166018007051 RNA binding site [nucleotide binding]; other site 1166018007052 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 1166018007053 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1166018007054 LabA_like proteins; Region: LabA_like; cd06167 1166018007055 putative metal binding site [ion binding]; other site 1166018007056 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1166018007057 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 1166018007058 RNA binding site [nucleotide binding]; other site 1166018007059 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1166018007060 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 1166018007061 active site 1166018007062 motif I; other site 1166018007063 motif II; other site 1166018007064 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1166018007065 putative active site pocket [active] 1166018007066 4-fold oligomerization interface [polypeptide binding]; other site 1166018007067 metal binding residues [ion binding]; metal-binding site 1166018007068 3-fold/trimer interface [polypeptide binding]; other site 1166018007069 CHRD domain; Region: CHRD; pfam07452 1166018007070 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1166018007071 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018007072 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 1166018007073 DNA binding residues [nucleotide binding] 1166018007074 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1166018007075 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 1166018007076 CoA-binding site [chemical binding]; other site 1166018007077 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1166018007078 Haemolytic domain; Region: Haemolytic; pfam01809 1166018007079 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1166018007080 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1166018007081 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1166018007082 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1166018007083 active site 1166018007084 catalytic site [active] 1166018007085 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 1166018007086 Na binding site [ion binding]; other site 1166018007087 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 1166018007088 recombination protein RecR; Reviewed; Region: recR; PRK00076 1166018007089 RecR protein; Region: RecR; pfam02132 1166018007090 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 1166018007091 putative active site [active] 1166018007092 putative metal-binding site [ion binding]; other site 1166018007093 tetramer interface [polypeptide binding]; other site 1166018007094 ribulokinase; Provisional; Region: PRK04123 1166018007095 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 1166018007096 N- and C-terminal domain interface [polypeptide binding]; other site 1166018007097 active site 1166018007098 MgATP binding site [chemical binding]; other site 1166018007099 catalytic site [active] 1166018007100 metal binding site [ion binding]; metal-binding site 1166018007101 carbohydrate binding site [chemical binding]; other site 1166018007102 homodimer interface [polypeptide binding]; other site 1166018007103 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 1166018007104 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1166018007105 intersubunit interface [polypeptide binding]; other site 1166018007106 active site 1166018007107 Zn2+ binding site [ion binding]; other site 1166018007108 L-arabinose isomerase; Provisional; Region: PRK02929 1166018007109 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 1166018007110 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 1166018007111 trimer interface [polypeptide binding]; other site 1166018007112 putative substrate binding site [chemical binding]; other site 1166018007113 putative metal binding site [ion binding]; other site 1166018007114 Abhydrolase family; Region: Abhydrolase_7; pfam12715 1166018007115 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 1166018007116 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1166018007117 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1166018007118 active site 1166018007119 Predicted transcriptional regulators [Transcription]; Region: COG1733 1166018007120 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1166018007121 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1166018007122 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1166018007123 potential catalytic triad [active] 1166018007124 conserved cys residue [active] 1166018007125 Protein of unknown function, DUF481; Region: DUF481; cl01213 1166018007126 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1166018007127 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1166018007128 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 1166018007129 Predicted membrane protein [Function unknown]; Region: COG4682 1166018007130 yiaA/B two helix domain; Region: YiaAB; pfam05360 1166018007131 yiaA/B two helix domain; Region: YiaAB; pfam05360 1166018007132 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1166018007133 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 1166018007134 motif II; other site 1166018007135 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1166018007136 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1166018007137 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 1166018007138 dimer interface [polypeptide binding]; other site 1166018007139 active site 1166018007140 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1166018007141 NAD(P) binding site [chemical binding]; other site 1166018007142 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1166018007143 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1166018007144 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1166018007145 Protein of unknown function, DUF393; Region: DUF393; cl01136 1166018007146 Predicted transcriptional regulators [Transcription]; Region: COG1510 1166018007147 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 1166018007148 putative active site [active] 1166018007149 putative CoA binding site [chemical binding]; other site 1166018007150 nudix motif; other site 1166018007151 metal binding site [ion binding]; metal-binding site 1166018007152 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1166018007153 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1166018007154 active site 1166018007155 catalytic triad [active] 1166018007156 dimer interface [polypeptide binding]; other site 1166018007157 kynureninase; Region: kynureninase; TIGR01814 1166018007158 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 1166018007159 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018007160 catalytic residue [active] 1166018007161 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018007162 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018007163 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1166018007164 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1166018007165 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1166018007166 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1166018007167 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1166018007168 active site 1166018007169 catalytic residues [active] 1166018007170 proline aminopeptidase P II; Provisional; Region: PRK10879 1166018007171 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 1166018007172 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 1166018007173 active site 1166018007174 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018007175 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018007176 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1166018007177 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1166018007178 classical (c) SDRs; Region: SDR_c; cd05233 1166018007179 NAD(P) binding site [chemical binding]; other site 1166018007180 active site 1166018007181 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1166018007182 glutamate racemase; Provisional; Region: PRK00865 1166018007183 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 1166018007184 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 1166018007185 putative substrate translocation pore; other site 1166018007186 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1166018007187 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 1166018007188 putative ligand binding site [chemical binding]; other site 1166018007189 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1166018007190 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1166018007191 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018007192 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1166018007193 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1166018007194 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1166018007195 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 1166018007196 trehalose synthase; Region: treS_nterm; TIGR02456 1166018007197 Ca binding site [ion binding]; other site 1166018007198 active site 1166018007199 catalytic site [active] 1166018007200 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1166018007201 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1166018007202 putative DNA binding site [nucleotide binding]; other site 1166018007203 putative Zn2+ binding site [ion binding]; other site 1166018007204 AsnC family; Region: AsnC_trans_reg; pfam01037 1166018007205 Protein of unknown function (DUF819); Region: DUF819; cl02317 1166018007206 Glycosyl hydrolase family 43; Region: GH43_bXyl_2; cd08991 1166018007207 active site 1166018007208 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 1166018007209 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1166018007210 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1166018007211 putative acyl-acceptor binding pocket; other site 1166018007212 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1166018007213 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1166018007214 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1166018007215 active site 1166018007216 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1166018007217 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1166018007218 NADP binding site [chemical binding]; other site 1166018007219 homopentamer interface [polypeptide binding]; other site 1166018007220 substrate binding site [chemical binding]; other site 1166018007221 active site 1166018007222 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1166018007223 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1166018007224 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1166018007225 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1166018007226 Predicted membrane protein [Function unknown]; Region: COG3918 1166018007227 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1166018007228 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018007229 Walker A/P-loop; other site 1166018007230 ATP binding site [chemical binding]; other site 1166018007231 Q-loop/lid; other site 1166018007232 ABC transporter signature motif; other site 1166018007233 Walker B; other site 1166018007234 D-loop; other site 1166018007235 H-loop/switch region; other site 1166018007236 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1166018007237 Walker A/P-loop; other site 1166018007238 ATP binding site [chemical binding]; other site 1166018007239 Q-loop/lid; other site 1166018007240 ABC transporter signature motif; other site 1166018007241 Walker B; other site 1166018007242 D-loop; other site 1166018007243 H-loop/switch region; other site 1166018007244 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 1166018007245 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1166018007246 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1166018007247 homodimer interface [polypeptide binding]; other site 1166018007248 NADP binding site [chemical binding]; other site 1166018007249 substrate binding site [chemical binding]; other site 1166018007250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1166018007251 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1166018007252 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018007253 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1166018007254 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1166018007255 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018007256 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 1166018007257 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018007258 TPR repeat; Region: TPR_11; pfam13414 1166018007259 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 1166018007260 TPR motif; other site 1166018007261 binding surface 1166018007262 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018007263 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 1166018007264 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1166018007265 Domain of unknown function (DUF389); Region: DUF389; pfam04087 1166018007266 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1166018007267 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 1166018007268 dimer interface [polypeptide binding]; other site 1166018007269 phosphorylation site [posttranslational modification] 1166018007270 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 1166018007271 ATP binding site [chemical binding]; other site 1166018007272 Mg2+ binding site [ion binding]; other site 1166018007273 G-X-G motif; other site 1166018007274 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018007275 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 1166018007276 active site 1166018007277 phosphorylation site [posttranslational modification] 1166018007278 intermolecular recognition site; other site 1166018007279 dimerization interface [polypeptide binding]; other site 1166018007280 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 1166018007281 DNA binding site [nucleotide binding] 1166018007282 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 1166018007283 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1166018007284 active site 1166018007285 homotetramer interface [polypeptide binding]; other site 1166018007286 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1166018007287 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1166018007288 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 1166018007289 putative substrate binding site [chemical binding]; other site 1166018007290 active site 1166018007291 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 1166018007292 active site 1166018007293 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018007294 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018007295 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018007296 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018007297 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018007298 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018007299 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1166018007300 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018007301 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1166018007302 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018007303 VPS10 domain; Region: VPS10; smart00602 1166018007304 acetyl-CoA synthetase; Provisional; Region: PRK00174 1166018007305 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1166018007306 active site 1166018007307 CoA binding site [chemical binding]; other site 1166018007308 acyl-activating enzyme (AAE) consensus motif; other site 1166018007309 AMP binding site [chemical binding]; other site 1166018007310 acetate binding site [chemical binding]; other site 1166018007311 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1166018007312 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1166018007313 acyl-activating enzyme (AAE) consensus motif; other site 1166018007314 AMP binding site [chemical binding]; other site 1166018007315 active site 1166018007316 CoA binding site [chemical binding]; other site 1166018007317 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 1166018007318 putative substrate translocation pore; other site 1166018007319 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1166018007320 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1166018007321 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1166018007322 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1166018007323 ribonuclease Y; Region: RNase_Y; TIGR03319 1166018007324 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 1166018007325 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 1166018007326 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1166018007327 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1166018007328 alpha-glucosidase; Provisional; Region: PRK10137 1166018007329 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 1166018007330 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 1166018007331 dimerization interface [polypeptide binding]; other site 1166018007332 substrate binding site [chemical binding]; other site 1166018007333 active site 1166018007334 calcium binding site [ion binding]; other site 1166018007335 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1166018007336 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 1166018007337 active site 1166018007338 catalytic site [active] 1166018007339 metal binding site [ion binding]; metal-binding site 1166018007340 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1166018007341 Lipase (class 3). 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...; Region: Lipase_3; cd00519 1166018007342 active site flap/lid [active] 1166018007343 nucleophilic elbow; other site 1166018007344 catalytic triad [active] 1166018007345 META domain; Region: META; pfam03724 1166018007346 Beta/Gamma crystallin; Region: Crystall; cl02528 1166018007347 Beta/Gamma crystallin; Region: Crystall; cl02528 1166018007348 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018007349 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018007350 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 1166018007351 oligomerisation interface [polypeptide binding]; other site 1166018007352 mobile loop; other site 1166018007353 roof hairpin; other site 1166018007354 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 1166018007355 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1166018007356 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1166018007357 NADP binding site [chemical binding]; other site 1166018007358 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 1166018007359 active site 1166018007360 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1166018007361 Family description; Region: UvrD_C_2; pfam13538 1166018007362 AAA domain; Region: AAA_30; pfam13604 1166018007363 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1166018007364 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 1166018007365 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 1166018007366 FOG: CBS domain [General function prediction only]; Region: COG0517 1166018007367 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; cd02883 1166018007368 nudix motif; other site 1166018007369 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 1166018007370 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1166018007371 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1166018007372 active site 1166018007373 (T/H)XGH motif; other site 1166018007374 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1166018007375 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1166018007376 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1166018007377 5S rRNA interface [nucleotide binding]; other site 1166018007378 CTC domain interface [polypeptide binding]; other site 1166018007379 L16 interface [polypeptide binding]; other site 1166018007380 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1166018007381 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1166018007382 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1166018007383 active site 1166018007384 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1166018007385 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 1166018007386 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018007387 catalytic residues [active] 1166018007388 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 1166018007389 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1166018007390 acyl-activating enzyme (AAE) consensus motif; other site 1166018007391 AMP binding site [chemical binding]; other site 1166018007392 active site 1166018007393 CoA binding site [chemical binding]; other site 1166018007394 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 1166018007395 putative ligand binding site [chemical binding]; other site 1166018007396 Protein of unknown function (DUF2452); Region: DUF2452; pfam10504 1166018007397 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 1166018007398 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1166018007399 substrate binding site [chemical binding]; other site 1166018007400 oxyanion hole (OAH) forming residues; other site 1166018007401 trimer interface [polypeptide binding]; other site 1166018007402 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 1166018007403 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018007404 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 1166018007405 active site 1166018007406 phosphorylation site [posttranslational modification] 1166018007407 intermolecular recognition site; other site 1166018007408 dimerization interface [polypeptide binding]; other site 1166018007409 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018007410 Histidine kinase; Region: His_kinase; pfam06580 1166018007411 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 1166018007412 ATP binding site [chemical binding]; other site 1166018007413 Mg2+ binding site [ion binding]; other site 1166018007414 G-X-G motif; other site 1166018007415 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1166018007416 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1166018007417 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1166018007418 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1166018007419 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1166018007420 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1166018007421 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1166018007422 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1166018007423 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1166018007424 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 1166018007425 homodimer interface [polypeptide binding]; other site 1166018007426 substrate-cofactor binding pocket; other site 1166018007427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018007428 catalytic residue [active] 1166018007429 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1166018007430 Peptidase family M48; Region: Peptidase_M48; pfam01435 1166018007431 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1166018007432 Chromate transporter; Region: Chromate_transp; pfam02417 1166018007433 Chromate transporter; Region: Chromate_transp; pfam02417 1166018007434 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1166018007435 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1166018007436 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1166018007437 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 1166018007438 PAS domain; Region: PAS; smart00091 1166018007439 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 1166018007440 putative active site [active] 1166018007441 heme pocket [chemical binding]; other site 1166018007442 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 1166018007443 putative active site [active] 1166018007444 heme pocket [chemical binding]; other site 1166018007445 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 1166018007446 dimer interface [polypeptide binding]; other site 1166018007447 phosphorylation site [posttranslational modification] 1166018007448 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 1166018007449 ATP binding site [chemical binding]; other site 1166018007450 Mg2+ binding site [ion binding]; other site 1166018007451 G-X-G motif; other site 1166018007452 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1166018007453 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1166018007454 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1166018007455 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1166018007456 classical (c) SDRs; Region: SDR_c; cd05233 1166018007457 NAD(P) binding site [chemical binding]; other site 1166018007458 active site 1166018007459 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1166018007460 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1166018007461 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 1166018007462 RNA binding site [nucleotide binding]; other site 1166018007463 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 1166018007464 multimer interface [polypeptide binding]; other site 1166018007465 Walker A motif; other site 1166018007466 ATP binding site [chemical binding]; other site 1166018007467 Walker B motif; other site 1166018007468 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1166018007469 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1166018007470 substrate binding pocket [chemical binding]; other site 1166018007471 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018007472 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1166018007473 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1166018007474 active site 1166018007475 catalytic site [active] 1166018007476 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018007477 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018007478 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1166018007479 nudix motif; other site 1166018007480 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1166018007481 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1166018007482 Putative esterase; Region: Esterase; pfam00756 1166018007483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1166018007484 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1166018007485 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1166018007486 substrate binding pocket [chemical binding]; other site 1166018007487 catalytic triad [active] 1166018007488 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1166018007489 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1166018007490 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018007491 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1166018007492 Citrate transporter; Region: CitMHS; pfam03600 1166018007493 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1166018007494 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1166018007495 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018007496 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1166018007497 FtsH Extracellular; Region: FtsH_ext; pfam06480 1166018007498 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1166018007499 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 1166018007500 Walker A motif; other site 1166018007501 ATP binding site [chemical binding]; other site 1166018007502 Walker B motif; other site 1166018007503 arginine finger; other site 1166018007504 Peptidase family M41; Region: Peptidase_M41; pfam01434 1166018007505 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1166018007506 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1166018007507 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1166018007508 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1166018007509 Adhesin lipoprotein; Region: Lipoprotein_7; pfam01540 1166018007510 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1166018007511 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018007512 FtsX-like permease family; Region: FtsX; pfam02687 1166018007513 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1166018007514 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1166018007515 tandem repeat interface [polypeptide binding]; other site 1166018007516 oligomer interface [polypeptide binding]; other site 1166018007517 active site residues [active] 1166018007518 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1166018007519 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1166018007520 tandem repeat interface [polypeptide binding]; other site 1166018007521 oligomer interface [polypeptide binding]; other site 1166018007522 active site residues [active] 1166018007523 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1166018007524 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 1166018007525 Uncharacterized conserved protein [Function unknown]; Region: COG4104 1166018007526 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1166018007527 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1166018007528 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1166018007529 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 1166018007530 active site 1166018007531 motif I; other site 1166018007532 motif II; other site 1166018007533 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 1166018007534 CCC1-related family of proteins; Region: CCC1_like; cl00278 1166018007535 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1166018007536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 1166018007537 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1166018007538 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1166018007539 active site 1166018007540 DNA polymerase IV; Validated; Region: PRK02406 1166018007541 DNA binding site [nucleotide binding] 1166018007542 Beta-propeller repeat; Region: SBBP; pfam06739 1166018007543 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1166018007544 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1166018007545 putative ligand binding site [chemical binding]; other site 1166018007546 putative NAD binding site [chemical binding]; other site 1166018007547 catalytic site [active] 1166018007548 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018007549 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 1166018007550 dimerization interface [polypeptide binding]; other site 1166018007551 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 1166018007552 dimer interface [polypeptide binding]; other site 1166018007553 phosphorylation site [posttranslational modification] 1166018007554 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 1166018007555 ATP binding site [chemical binding]; other site 1166018007556 Mg2+ binding site [ion binding]; other site 1166018007557 G-X-G motif; other site 1166018007558 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1166018007559 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 1166018007560 active site 1166018007561 phosphorylation site [posttranslational modification] 1166018007562 intermolecular recognition site; other site 1166018007563 dimerization interface [polypeptide binding]; other site 1166018007564 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 1166018007565 DNA binding site [nucleotide binding] 1166018007566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018007567 short chain dehydrogenase; Provisional; Region: PRK06701 1166018007568 NAD(P) binding site [chemical binding]; other site 1166018007569 active site 1166018007570 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1166018007571 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 1166018007572 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018007573 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1166018007574 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1166018007575 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 1166018007576 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1166018007577 PGAP1-like protein; Region: PGAP1; pfam07819 1166018007578 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 1166018007579 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018007580 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 1166018007581 DNA binding residues [nucleotide binding] 1166018007582 Heme NO binding; Region: HNOB; pfam07700 1166018007583 PAS domain S-box; Region: sensory_box; TIGR00229 1166018007584 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 1166018007585 putative active site [active] 1166018007586 heme pocket [chemical binding]; other site 1166018007587 PAS domain; Region: PAS; smart00091 1166018007588 PAS fold; Region: PAS_4; pfam08448 1166018007589 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 1166018007590 PAS domain; Region: PAS_9; pfam13426 1166018007591 putative active site [active] 1166018007592 heme pocket [chemical binding]; other site 1166018007593 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018007594 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 1166018007595 dimer interface [polypeptide binding]; other site 1166018007596 phosphorylation site [posttranslational modification] 1166018007597 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 1166018007598 ATP binding site [chemical binding]; other site 1166018007599 Mg2+ binding site [ion binding]; other site 1166018007600 G-X-G motif; other site 1166018007601 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018007602 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 1166018007603 active site 1166018007604 phosphorylation site [posttranslational modification] 1166018007605 intermolecular recognition site; other site 1166018007606 dimerization interface [polypeptide binding]; other site 1166018007607 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 1166018007608 putative binding surface; other site 1166018007609 active site 1166018007610 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018007611 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 1166018007612 active site 1166018007613 phosphorylation site [posttranslational modification] 1166018007614 intermolecular recognition site; other site 1166018007615 dimerization interface [polypeptide binding]; other site 1166018007616 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018007617 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1166018007618 Class II fumarases; Region: Fumarase_classII; cd01362 1166018007619 active site 1166018007620 tetramer interface [polypeptide binding]; other site 1166018007621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1166018007622 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1166018007623 homotrimer interaction site [polypeptide binding]; other site 1166018007624 putative active site [active] 1166018007625 Beta-lactamase; Region: Beta-lactamase; pfam00144 1166018007626 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018007627 MG2 domain; Region: A2M_N; pfam01835 1166018007628 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 1166018007629 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018007630 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018007631 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018007632 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 1166018007633 Cna protein B-type domain; Region: Cna_B; pfam05738 1166018007634 conserved repeat domain; Region: B_ant_repeat; TIGR01451 1166018007635 malate:quinone oxidoreductase; Validated; Region: PRK05257 1166018007636 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1166018007637 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018007638 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 1166018007639 active site 1166018007640 phosphorylation site [posttranslational modification] 1166018007641 intermolecular recognition site; other site 1166018007642 dimerization interface [polypeptide binding]; other site 1166018007643 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1166018007644 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018007645 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018007646 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 1166018007647 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1166018007648 active site 1166018007649 catalytic tetrad [active] 1166018007650 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018007651 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018007652 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1166018007653 active site 1166018007654 GTP cyclohydrolase I; Provisional; Region: PLN03044 1166018007655 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1166018007656 active site 1166018007657 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1166018007658 classical (c) SDRs; Region: SDR_c; cd05233 1166018007659 NAD(P) binding site [chemical binding]; other site 1166018007660 active site 1166018007661 Calx-beta domain; Region: Calx-beta; cl02522 1166018007662 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 1166018007663 generic binding surface II; other site 1166018007664 generic binding surface I; other site 1166018007665 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1166018007666 putative catalytic site [active] 1166018007667 putative metal binding site [ion binding]; other site 1166018007668 putative phosphate binding site [ion binding]; other site 1166018007669 Cellulose binding domain; Region: CBM_3; cl03026 1166018007670 Cellulose binding domain; Region: CBM_3; pfam00942 1166018007671 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1166018007672 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1166018007673 serine racemase; Region: PLN02970 1166018007674 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 1166018007675 tetramer interface [polypeptide binding]; other site 1166018007676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018007677 catalytic residue [active] 1166018007678 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1166018007679 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1166018007680 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1166018007681 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1166018007682 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1166018007683 putative active site [active] 1166018007684 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018007685 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018007686 ligand binding site [chemical binding]; other site 1166018007687 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1166018007688 endonuclease III; Region: ENDO3c; smart00478 1166018007689 minor groove reading motif; other site 1166018007690 helix-hairpin-helix signature motif; other site 1166018007691 substrate binding pocket [chemical binding]; other site 1166018007692 active site 1166018007693 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 1166018007694 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1166018007695 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1166018007696 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1166018007697 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1166018007698 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1166018007699 putative NAD(P) binding site [chemical binding]; other site 1166018007700 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1166018007701 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1166018007702 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1166018007703 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1166018007704 Trehalose utilisation; Region: ThuA; pfam06283 1166018007705 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018007706 FOG: PKD repeat [General function prediction only]; Region: COG3291 1166018007707 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1166018007708 Cytochrome c; Region: Cytochrom_C; cl11414 1166018007709 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 1166018007710 ligand binding site [chemical binding]; other site 1166018007711 metal binding site [ion binding]; metal-binding site 1166018007712 TPR repeat; Region: TPR_11; pfam13414 1166018007713 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 1166018007714 TPR motif; other site 1166018007715 binding surface 1166018007716 TPR repeat; Region: TPR_11; pfam13414 1166018007717 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 1166018007718 binding surface 1166018007719 TPR motif; other site 1166018007720 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 1166018007721 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1166018007722 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1166018007723 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1166018007724 active site 1166018007725 intersubunit interactions; other site 1166018007726 catalytic residue [active] 1166018007727 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1166018007728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018007729 Walker A/P-loop; other site 1166018007730 ATP binding site [chemical binding]; other site 1166018007731 Q-loop/lid; other site 1166018007732 ABC transporter signature motif; other site 1166018007733 Walker B; other site 1166018007734 D-loop; other site 1166018007735 H-loop/switch region; other site 1166018007736 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 1166018007737 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1166018007738 endonuclease III; Region: ENDO3c; smart00478 1166018007739 minor groove reading motif; other site 1166018007740 helix-hairpin-helix signature motif; other site 1166018007741 substrate binding pocket [chemical binding]; other site 1166018007742 active site 1166018007743 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1166018007744 NH_2: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_2; cd02652 1166018007745 active site 1166018007746 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1166018007747 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 1166018007748 oligomer interface [polypeptide binding]; other site 1166018007749 metal binding site [ion binding]; metal-binding site 1166018007750 metal binding site [ion binding]; metal-binding site 1166018007751 Cl binding site [ion binding]; other site 1166018007752 aspartate ring; other site 1166018007753 basic sphincter; other site 1166018007754 putative hydrophobic gate; other site 1166018007755 periplasmic entrance; other site 1166018007756 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 1166018007757 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1166018007758 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1166018007759 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1166018007760 active site 1166018007761 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1166018007762 dimer interface [polypeptide binding]; other site 1166018007763 substrate binding site [chemical binding]; other site 1166018007764 catalytic residues [active] 1166018007765 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 1166018007766 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018007767 catalytic residues [active] 1166018007768 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1166018007769 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 1166018007770 NADP binding site [chemical binding]; other site 1166018007771 substrate binding site [chemical binding]; other site 1166018007772 active site 1166018007773 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018007774 Transglycosylase; Region: Transgly; pfam00912 1166018007775 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1166018007776 putative oxidoreductase; Provisional; Region: PRK13984 1166018007777 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 1166018007778 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 1166018007779 Catalytic site [active] 1166018007780 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 1166018007781 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1166018007782 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1166018007783 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1166018007784 ParB-like nuclease domain; Region: ParB; smart00470 1166018007785 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1166018007786 KorB domain; Region: KorB; pfam08535 1166018007787 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1166018007788 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 1166018007789 P-loop; other site 1166018007790 Magnesium ion binding site [ion binding]; other site 1166018007791 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 1166018007792 Magnesium ion binding site [ion binding]; other site 1166018007793 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1166018007794 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018007795 Walker A/P-loop; other site 1166018007796 ATP binding site [chemical binding]; other site 1166018007797 Q-loop/lid; other site 1166018007798 ABC transporter signature motif; other site 1166018007799 Walker B; other site 1166018007800 D-loop; other site 1166018007801 H-loop/switch region; other site 1166018007802 TOBE domain; Region: TOBE_2; pfam08402 1166018007803 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1166018007804 OmpW family; Region: OmpW; cl17427 1166018007805 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1166018007806 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1166018007807 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1166018007808 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 1166018007809 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018007810 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018007811 ligand binding site [chemical binding]; other site 1166018007812 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1166018007813 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 1166018007814 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018007815 putative substrate translocation pore; other site 1166018007816 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1166018007817 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 1166018007818 catalytic residues [active] 1166018007819 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1166018007820 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018007821 aldehyde dehydrogenase family 7 member; Region: PLN02315 1166018007822 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1166018007823 tetrameric interface [polypeptide binding]; other site 1166018007824 NAD binding site [chemical binding]; other site 1166018007825 catalytic residues [active] 1166018007826 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1166018007827 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1166018007828 dimer interface [polypeptide binding]; other site 1166018007829 active site 1166018007830 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1166018007831 catalytic residues [active] 1166018007832 substrate binding site [chemical binding]; other site 1166018007833 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 1166018007834 metal-binding site [ion binding] 1166018007835 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1166018007836 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1166018007837 dimerization interface [polypeptide binding]; other site 1166018007838 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 1166018007839 metal-binding site [ion binding] 1166018007840 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1166018007841 Peptidase family M23; Region: Peptidase_M23; pfam01551 1166018007842 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018007843 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1166018007844 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1166018007845 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1166018007846 TPR repeat; Region: TPR_11; pfam13414 1166018007847 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 1166018007848 binding surface 1166018007849 TPR motif; other site 1166018007850 Tetratricopeptide repeat; Region: TPR_9; pfam13371 1166018007851 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1166018007852 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018007853 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018007854 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018007855 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018007856 ligand binding site [chemical binding]; other site 1166018007857 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1166018007858 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1166018007859 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1166018007860 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1166018007861 putative active site; other site 1166018007862 catalytic triad [active] 1166018007863 putative dimer interface [polypeptide binding]; other site 1166018007864 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1166018007865 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_4; cd11350 1166018007866 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1166018007867 active site 1166018007868 catalytic site [active] 1166018007869 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018007870 PAS domain; Region: PAS_9; pfam13426 1166018007871 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 1166018007872 putative active site [active] 1166018007873 heme pocket [chemical binding]; other site 1166018007874 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 1166018007875 dimer interface [polypeptide binding]; other site 1166018007876 phosphorylation site [posttranslational modification] 1166018007877 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 1166018007878 ATP binding site [chemical binding]; other site 1166018007879 Mg2+ binding site [ion binding]; other site 1166018007880 G-X-G motif; other site 1166018007881 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14970 1166018007882 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 1166018007883 Walker A motif; other site 1166018007884 ATP binding site [chemical binding]; other site 1166018007885 Walker B motif; other site 1166018007886 arginine finger; other site 1166018007887 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 1166018007888 altronate oxidoreductase; Provisional; Region: PRK03643 1166018007889 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1166018007890 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1166018007891 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1166018007892 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1166018007893 active site 1166018007894 intersubunit interface [polypeptide binding]; other site 1166018007895 catalytic residue [active] 1166018007896 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1166018007897 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1166018007898 substrate binding site [chemical binding]; other site 1166018007899 ATP binding site [chemical binding]; other site 1166018007900 D-galactonate transporter; Region: 2A0114; TIGR00893 1166018007901 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 1166018007902 putative substrate translocation pore; other site 1166018007903 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1166018007904 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 1166018007905 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 1166018007906 active site 1166018007907 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018007908 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 1166018007909 active site clefts [active] 1166018007910 zinc binding site [ion binding]; other site 1166018007911 dimer interface [polypeptide binding]; other site 1166018007912 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1166018007913 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1166018007914 G1 box; other site 1166018007915 putative GEF interaction site [polypeptide binding]; other site 1166018007916 GTP/Mg2+ binding site [chemical binding]; other site 1166018007917 Switch I region; other site 1166018007918 G2 box; other site 1166018007919 G3 box; other site 1166018007920 Switch II region; other site 1166018007921 G4 box; other site 1166018007922 G5 box; other site 1166018007923 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1166018007924 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1166018007925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 1166018007926 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1166018007927 dimerization interface [polypeptide binding]; other site 1166018007928 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1166018007929 Protein of unknown function (DUF3891); Region: DUF3891; pfam13030 1166018007930 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1166018007931 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 1166018007932 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1166018007933 active site 1166018007934 catalytic site [active] 1166018007935 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1166018007936 dinuclear metal binding motif [ion binding]; other site 1166018007937 Protein of unknown function (DUF3140); Region: DUF3140; pfam11338 1166018007938 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018007939 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018007940 ligand binding site [chemical binding]; other site 1166018007941 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018007942 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 1166018007943 active site 1166018007944 phosphorylation site [posttranslational modification] 1166018007945 intermolecular recognition site; other site 1166018007946 dimerization interface [polypeptide binding]; other site 1166018007947 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018007948 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018007949 Histidine kinase; Region: HisKA_2; pfam07568 1166018007950 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 1166018007951 ATP binding site [chemical binding]; other site 1166018007952 Mg2+ binding site [ion binding]; other site 1166018007953 G-X-G motif; other site 1166018007954 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018007955 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 1166018007956 binding surface 1166018007957 TPR motif; other site 1166018007958 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018007959 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 1166018007960 binding surface 1166018007961 TPR motif; other site 1166018007962 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018007963 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018007964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018007965 Histidine kinase; Region: HisKA_2; pfam07568 1166018007966 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 1166018007967 ATP binding site [chemical binding]; other site 1166018007968 Mg2+ binding site [ion binding]; other site 1166018007969 G-X-G motif; other site 1166018007970 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1166018007971 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1166018007972 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1166018007973 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1166018007974 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 1166018007975 dimer interface [polypeptide binding]; other site 1166018007976 ADP-ribose binding site [chemical binding]; other site 1166018007977 active site 1166018007978 nudix motif; other site 1166018007979 metal binding site [ion binding]; metal-binding site 1166018007980 short chain dehydrogenase; Provisional; Region: PRK06701 1166018007981 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1166018007982 NAD binding site [chemical binding]; other site 1166018007983 metal binding site [ion binding]; metal-binding site 1166018007984 active site 1166018007985 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1166018007986 Secretory lipase; Region: LIP; pfam03583 1166018007987 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1166018007988 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018007989 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018007990 YtxH-like protein; Region: YtxH; pfam12732 1166018007991 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1166018007992 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1166018007993 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 1166018007994 catalytic core [active] 1166018007995 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1166018007996 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1166018007997 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1166018007998 active site 1166018007999 Zn binding site [ion binding]; other site 1166018008000 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018008001 Predicted membrane protein [Function unknown]; Region: COG4270 1166018008002 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1166018008003 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1166018008004 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1166018008005 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018008006 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018008007 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1166018008008 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1166018008009 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018008010 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018008011 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018008012 SusD family; Region: SusD; pfam07980 1166018008013 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1166018008014 active site 1166018008015 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1166018008016 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1166018008017 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1166018008018 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1166018008019 Two component regulator propeller; Region: Reg_prop; pfam07494 1166018008020 Two component regulator propeller; Region: Reg_prop; pfam07494 1166018008021 Two component regulator propeller; Region: Reg_prop; pfam07494 1166018008022 Two component regulator propeller; Region: Reg_prop; pfam07494 1166018008023 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1166018008024 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018008025 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 1166018008026 dimer interface [polypeptide binding]; other site 1166018008027 phosphorylation site [posttranslational modification] 1166018008028 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 1166018008029 ATP binding site [chemical binding]; other site 1166018008030 Mg2+ binding site [ion binding]; other site 1166018008031 G-X-G motif; other site 1166018008032 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018008033 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 1166018008034 active site 1166018008035 phosphorylation site [posttranslational modification] 1166018008036 intermolecular recognition site; other site 1166018008037 dimerization interface [polypeptide binding]; other site 1166018008038 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018008039 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018008040 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 1166018008041 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018008042 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018008043 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018008044 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018008045 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018008046 SusD family; Region: SusD; pfam07980 1166018008047 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 1166018008048 N-terminal domain of PARMER_03128; Region: PARMER_03128_N; cd12106 1166018008049 Bacterial proteins similar to Porphyromonas gingivalis HmuY and the C-terminal domain of PARMER_03218; Region: HmuY_like; cd07472 1166018008050 Alginate lyase; Region: Alginate_lyase; pfam05426 1166018008051 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1166018008052 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1166018008053 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 1166018008054 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1166018008055 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1166018008056 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018008057 Coenzyme A binding pocket [chemical binding]; other site 1166018008058 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1166018008059 active site 1166018008060 catalytic residues [active] 1166018008061 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018008062 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1166018008063 FtsX-like permease family; Region: FtsX; pfam02687 1166018008064 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 1166018008065 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1166018008066 ligand binding site [chemical binding]; other site 1166018008067 flexible hinge region; other site 1166018008068 Right handed beta helix region; Region: Beta_helix; pfam13229 1166018008069 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 1166018008070 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1166018008071 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1166018008072 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1166018008073 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1166018008074 tetrameric interface [polypeptide binding]; other site 1166018008075 activator binding site; other site 1166018008076 NADP binding site [chemical binding]; other site 1166018008077 substrate binding site [chemical binding]; other site 1166018008078 catalytic residues [active] 1166018008079 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1166018008080 active site 1166018008081 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1166018008082 Strictosidine synthase; Region: Str_synth; pfam03088 1166018008083 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1166018008084 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1166018008085 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1166018008086 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1166018008087 methionine aminotransferase; Validated; Region: PRK09082 1166018008088 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 1166018008089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018008090 homodimer interface [polypeptide binding]; other site 1166018008091 catalytic residue [active] 1166018008092 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1166018008093 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 1166018008094 active site 1166018008095 DNA binding site [nucleotide binding] 1166018008096 Int/Topo IB signature motif; other site 1166018008097 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1166018008098 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1166018008099 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1166018008100 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1166018008101 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1166018008102 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018008103 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 1166018008104 active site 1166018008105 phosphorylation site [posttranslational modification] 1166018008106 intermolecular recognition site; other site 1166018008107 dimerization interface [polypeptide binding]; other site 1166018008108 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 1166018008109 DNA binding site [nucleotide binding] 1166018008110 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018008111 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 1166018008112 dimerization interface [polypeptide binding]; other site 1166018008113 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 1166018008114 dimer interface [polypeptide binding]; other site 1166018008115 phosphorylation site [posttranslational modification] 1166018008116 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 1166018008117 ATP binding site [chemical binding]; other site 1166018008118 Mg2+ binding site [ion binding]; other site 1166018008119 G-X-G motif; other site 1166018008120 Outer membrane efflux protein; Region: OEP; pfam02321 1166018008121 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018008122 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018008123 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018008124 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1166018008125 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 1166018008126 dimer interface [polypeptide binding]; other site 1166018008127 phosphorylation site [posttranslational modification] 1166018008128 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 1166018008129 ATP binding site [chemical binding]; other site 1166018008130 Mg2+ binding site [ion binding]; other site 1166018008131 G-X-G motif; other site 1166018008132 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 1166018008133 PAS fold; Region: PAS_3; pfam08447 1166018008134 putative active site [active] 1166018008135 heme pocket [chemical binding]; other site 1166018008136 PAS fold; Region: PAS_4; pfam08448 1166018008137 PAS fold; Region: PAS_4; pfam08448 1166018008138 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 1166018008139 dimer interface [polypeptide binding]; other site 1166018008140 phosphorylation site [posttranslational modification] 1166018008141 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 1166018008142 ATP binding site [chemical binding]; other site 1166018008143 Mg2+ binding site [ion binding]; other site 1166018008144 G-X-G motif; other site 1166018008145 pyruvate kinase; Validated; Region: PRK08187 1166018008146 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1166018008147 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1166018008148 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 1166018008149 PAS fold; Region: PAS_3; pfam08447 1166018008150 putative active site [active] 1166018008151 heme pocket [chemical binding]; other site 1166018008152 PAS fold; Region: PAS_4; pfam08448 1166018008153 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 1166018008154 dimer interface [polypeptide binding]; other site 1166018008155 phosphorylation site [posttranslational modification] 1166018008156 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 1166018008157 ATP binding site [chemical binding]; other site 1166018008158 Mg2+ binding site [ion binding]; other site 1166018008159 G-X-G motif; other site 1166018008160 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018008161 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018008162 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018008163 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 1166018008164 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1166018008165 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1166018008166 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1166018008167 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1166018008168 NADP binding site [chemical binding]; other site 1166018008169 Predicted transcriptional regulators [Transcription]; Region: COG1733 1166018008170 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1166018008171 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1166018008172 chaperone protein DnaJ; Provisional; Region: PRK14289 1166018008173 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 1166018008174 HSP70 interaction site [polypeptide binding]; other site 1166018008175 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1166018008176 substrate binding site [polypeptide binding]; other site 1166018008177 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1166018008178 Zn binding sites [ion binding]; other site 1166018008179 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1166018008180 dimer interface [polypeptide binding]; other site 1166018008181 heat shock protein GrpE; Provisional; Region: PRK14140 1166018008182 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 1166018008183 dimer interface [polypeptide binding]; other site 1166018008184 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1166018008185 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018008186 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018008187 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018008188 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018008189 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1166018008190 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1166018008191 hexamer interface [polypeptide binding]; other site 1166018008192 ligand binding site [chemical binding]; other site 1166018008193 putative active site [active] 1166018008194 NAD(P) binding site [chemical binding]; other site 1166018008195 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1166018008196 5'-3' exonuclease; Region: 53EXOc; smart00475 1166018008197 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1166018008198 active site 1166018008199 metal binding site 1 [ion binding]; metal-binding site 1166018008200 putative 5' ssDNA interaction site; other site 1166018008201 metal binding site 3; metal-binding site 1166018008202 metal binding site 2 [ion binding]; metal-binding site 1166018008203 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1166018008204 putative DNA binding site [nucleotide binding]; other site 1166018008205 putative metal binding site [ion binding]; other site 1166018008206 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 1166018008207 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 1166018008208 active site 1166018008209 catalytic site [active] 1166018008210 substrate binding site [chemical binding]; other site 1166018008211 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1166018008212 active site 1166018008213 DNA binding site [nucleotide binding] 1166018008214 catalytic site [active] 1166018008215 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1166018008216 Fasciclin domain; Region: Fasciclin; pfam02469 1166018008217 Fasciclin domain; Region: Fasciclin; pfam02469 1166018008218 Vitamin K epoxide reductase (VKOR) family; Region: VKOR; cl01729 1166018008219 putative active site [active] 1166018008220 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 1166018008221 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 1166018008222 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1166018008223 active site 1166018008224 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1166018008225 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018008226 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 1166018008227 TPR motif; other site 1166018008228 binding surface 1166018008229 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018008230 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1166018008231 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018008232 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1166018008233 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1166018008234 glutamine binding [chemical binding]; other site 1166018008235 catalytic triad [active] 1166018008236 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018008237 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1166018008238 FOG: CBS domain [General function prediction only]; Region: COG0517 1166018008239 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 1166018008240 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 1166018008241 Peptidase family M23; Region: Peptidase_M23; pfam01551 1166018008242 Protein of unknown function (DUF779); Region: DUF779; pfam05610 1166018008243 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1166018008244 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1166018008245 NAD(P) binding site [chemical binding]; other site 1166018008246 catalytic residues [active] 1166018008247 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1166018008248 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1166018008249 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018008250 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018008251 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 1166018008252 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018008253 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018008254 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018008255 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018008256 SusD family; Region: SusD; pfam07980 1166018008257 TPR repeat; Region: TPR_11; pfam13414 1166018008258 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 1166018008259 binding surface 1166018008260 TPR motif; other site 1166018008261 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018008262 TPR repeat; Region: TPR_11; pfam13414 1166018008263 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 1166018008264 TPR motif; other site 1166018008265 binding surface 1166018008266 TPR repeat; Region: TPR_11; pfam13414 1166018008267 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 1166018008268 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 1166018008269 dimer interface [polypeptide binding]; other site 1166018008270 tetramer interface [polypeptide binding]; other site 1166018008271 PYR/PP interface [polypeptide binding]; other site 1166018008272 TPP binding site [chemical binding]; other site 1166018008273 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 1166018008274 TPP-binding site; other site 1166018008275 EVE domain; Region: EVE; pfam01878 1166018008276 DinB superfamily; Region: DinB_2; pfam12867 1166018008277 Preprotein translocase subunit; Region: YajC; pfam02699 1166018008278 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 1166018008279 YtxH-like protein; Region: YtxH; pfam12732 1166018008280 transcription antitermination factor NusB; Region: nusB; TIGR01951 1166018008281 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1166018008282 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1166018008283 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018008284 Walker A/P-loop; other site 1166018008285 ATP binding site [chemical binding]; other site 1166018008286 Q-loop/lid; other site 1166018008287 ABC transporter signature motif; other site 1166018008288 Walker B; other site 1166018008289 D-loop; other site 1166018008290 H-loop/switch region; other site 1166018008291 DNA repair protein RadA; Provisional; Region: PRK11823 1166018008292 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 1166018008293 Walker A motif/ATP binding site; other site 1166018008294 ATP binding site [chemical binding]; other site 1166018008295 Walker B motif; other site 1166018008296 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1166018008297 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018008298 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018008299 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018008300 GMP synthase; Reviewed; Region: guaA; PRK00074 1166018008301 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1166018008302 AMP/PPi binding site [chemical binding]; other site 1166018008303 candidate oxyanion hole; other site 1166018008304 catalytic triad [active] 1166018008305 potential glutamine specificity residues [chemical binding]; other site 1166018008306 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 1166018008307 ATP Binding subdomain [chemical binding]; other site 1166018008308 Ligand Binding sites [chemical binding]; other site 1166018008309 Dimerization subdomain; other site 1166018008310 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1166018008311 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1166018008312 active site 1166018008313 HIGH motif; other site 1166018008314 dimer interface [polypeptide binding]; other site 1166018008315 KMSKS motif; other site 1166018008316 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1166018008317 intersubunit interface [polypeptide binding]; other site 1166018008318 active site 1166018008319 catalytic residue [active] 1166018008320 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1166018008321 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1166018008322 AP (apurinic/apyrimidinic) site pocket; other site 1166018008323 DNA interaction; other site 1166018008324 Metal-binding active site; metal-binding site 1166018008325 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1166018008326 NMT1/THI5 like; Region: NMT1; pfam09084 1166018008327 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 1166018008328 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1166018008329 PAP2_like_4 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_4; cd03395 1166018008330 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1166018008331 active site 1166018008332 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 1166018008333 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1166018008334 active site 1166018008335 metal binding site [ion binding]; metal-binding site 1166018008336 homotetramer interface [polypeptide binding]; other site 1166018008337 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1166018008338 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1166018008339 dimer interface [polypeptide binding]; other site 1166018008340 acyl-activating enzyme (AAE) consensus motif; other site 1166018008341 putative active site [active] 1166018008342 AMP binding site [chemical binding]; other site 1166018008343 putative CoA binding site [chemical binding]; other site 1166018008344 Astacin (Peptidase family M12A); Region: Astacin; pfam01400 1166018008345 Zinc-dependent metalloprotease, astacin_like subfamily or peptidase family M12A, a group of zinc-dependent proteolytic enzymes with a HExxH zinc-binding site/active site. Members of this family may have an amino terminal propeptide, which is cleaved to...; Region: ZnMc_astacin_like; cd04280 1166018008346 active site 1166018008347 H+ Antiporter protein; Region: 2A0121; TIGR00900 1166018008348 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 1166018008349 putative substrate translocation pore; other site 1166018008350 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1166018008351 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1166018008352 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 1166018008353 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1166018008354 putative active site [active] 1166018008355 putative metal binding site [ion binding]; other site 1166018008356 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1166018008357 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1166018008358 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1166018008359 active site 1166018008360 NTP binding site [chemical binding]; other site 1166018008361 metal binding triad [ion binding]; metal-binding site 1166018008362 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1166018008363 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1166018008364 Zn2+ binding site [ion binding]; other site 1166018008365 Mg2+ binding site [ion binding]; other site 1166018008366 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1166018008367 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1166018008368 Domain present in PSD-95, Dlg, and ZO-1/2; Region: PDZ; smart00228 1166018008369 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 1166018008370 binding surface 1166018008371 TPR motif; other site 1166018008372 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1166018008373 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 1166018008374 TPR motif; other site 1166018008375 binding surface 1166018008376 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1166018008377 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 1166018008378 binding surface 1166018008379 TPR motif; other site 1166018008380 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 1166018008381 binding surface 1166018008382 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1166018008383 TPR motif; other site 1166018008384 Sporulation related domain; Region: SPOR; pfam05036 1166018008385 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1166018008386 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1166018008387 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1166018008388 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 1166018008389 S-adenosylmethionine binding site [chemical binding]; other site 1166018008390 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1166018008391 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1166018008392 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1166018008393 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 1166018008394 trimer interface [polypeptide binding]; other site 1166018008395 active site 1166018008396 substrate binding site [chemical binding]; other site 1166018008397 CoA binding site [chemical binding]; other site 1166018008398 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1166018008399 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 1166018008400 binding surface 1166018008401 TPR motif; other site 1166018008402 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 1166018008403 binding surface 1166018008404 TPR motif; other site 1166018008405 DNA gyrase subunit A; Validated; Region: PRK05560 1166018008406 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1166018008407 CAP-like domain; other site 1166018008408 active site 1166018008409 primary dimer interface [polypeptide binding]; other site 1166018008410 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1166018008411 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1166018008412 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1166018008413 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1166018008414 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1166018008415 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1166018008416 RES domain; Region: RES; pfam08808 1166018008417 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 1166018008418 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1166018008419 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1166018008420 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1166018008421 dimer interface [polypeptide binding]; other site 1166018008422 active site 1166018008423 catalytic residue [active] 1166018008424 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1166018008425 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1166018008426 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 1166018008427 nucleotide binding pocket [chemical binding]; other site 1166018008428 K-X-D-G motif; other site 1166018008429 catalytic site [active] 1166018008430 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1166018008431 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1166018008432 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 1166018008433 Dimer interface [polypeptide binding]; other site 1166018008434 BRCT sequence motif; other site 1166018008435 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1166018008436 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 1166018008437 substrate binding site [chemical binding]; other site 1166018008438 hexamer interface [polypeptide binding]; other site 1166018008439 metal binding site [ion binding]; metal-binding site 1166018008440 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 1166018008441 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1166018008442 active site 1166018008443 catalytic site [active] 1166018008444 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018008445 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018008446 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018008447 ligand binding site [chemical binding]; other site 1166018008448 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1166018008449 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1166018008450 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1166018008451 Ligand binding site; other site 1166018008452 Putative Catalytic site; other site 1166018008453 DXD motif; other site 1166018008454 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 1166018008455 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018008456 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 1166018008457 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1166018008458 Histidine kinase; Region: His_kinase; pfam06580 1166018008459 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018008460 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 1166018008461 active site 1166018008462 phosphorylation site [posttranslational modification] 1166018008463 intermolecular recognition site; other site 1166018008464 dimerization interface [polypeptide binding]; other site 1166018008465 CheB methylesterase; Region: CheB_methylest; pfam01339 1166018008466 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1166018008467 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1166018008468 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1166018008469 PAS fold; Region: PAS; pfam00989 1166018008470 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 1166018008471 PAS domain; Region: PAS_10; pfam13596 1166018008472 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 1166018008473 putative active site [active] 1166018008474 heme pocket [chemical binding]; other site 1166018008475 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1166018008476 PAS domain S-box; Region: sensory_box; TIGR00229 1166018008477 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1166018008478 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1166018008479 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018008480 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 1166018008481 dimer interface [polypeptide binding]; other site 1166018008482 phosphorylation site [posttranslational modification] 1166018008483 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 1166018008484 ATP binding site [chemical binding]; other site 1166018008485 Mg2+ binding site [ion binding]; other site 1166018008486 G-X-G motif; other site 1166018008487 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1166018008488 CheB methylesterase; Region: CheB_methylest; pfam01339 1166018008489 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018008490 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018008491 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 1166018008492 DNA binding residues [nucleotide binding] 1166018008493 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 1166018008494 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 1166018008495 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1166018008496 Bacterial SH3 domain; Region: SH3_3; cl17532 1166018008497 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 1166018008498 PAS fold; Region: PAS_3; pfam08447 1166018008499 putative active site [active] 1166018008500 heme pocket [chemical binding]; other site 1166018008501 GAF domain; Region: GAF; pfam01590 1166018008502 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1166018008503 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 1166018008504 putative active site [active] 1166018008505 heme pocket [chemical binding]; other site 1166018008506 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 1166018008507 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 1166018008508 dimer interface [polypeptide binding]; other site 1166018008509 phosphorylation site [posttranslational modification] 1166018008510 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 1166018008511 ATP binding site [chemical binding]; other site 1166018008512 G-X-G motif; other site 1166018008513 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 1166018008514 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1166018008515 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 1166018008516 non-specific DNA binding site [nucleotide binding]; other site 1166018008517 salt bridge; other site 1166018008518 sequence-specific DNA binding site [nucleotide binding]; other site 1166018008519 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 1166018008520 Catalytic site [active] 1166018008521 VRR-NUC domain; Region: VRR_NUC; pfam08774 1166018008522 Helix-turn-helix domain; Region: HTH_36; pfam13730 1166018008523 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1166018008524 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018008525 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 1166018008526 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 1166018008527 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 1166018008528 active site 1166018008529 motif I; other site 1166018008530 motif II; other site 1166018008531 ASC-1 homology domain, ASC-1-like subfamily. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain...; Region: ASCH_ASC-1_like; cd06554 1166018008532 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1166018008533 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1166018008534 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1166018008535 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 1166018008536 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 1166018008537 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1166018008538 Right handed beta helix region; Region: Beta_helix; pfam13229 1166018008539 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1166018008540 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018008541 Interdomain contacts; other site 1166018008542 Cytokine receptor motif; other site 1166018008543 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 1166018008544 calcium binding site [ion binding]; other site 1166018008545 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018008546 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018008547 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 1166018008548 DNA binding residues [nucleotide binding] 1166018008549 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 1166018008550 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 1166018008551 Active Sites [active] 1166018008552 DNA polymerase III subunit beta; Validated; Region: PRK05643 1166018008553 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 1166018008554 putative DNA binding surface [nucleotide binding]; other site 1166018008555 dimer interface [polypeptide binding]; other site 1166018008556 beta-clamp/clamp loader binding surface; other site 1166018008557 beta-clamp/translesion DNA polymerase binding surface; other site 1166018008558 PRTRC system protein E; Region: PRTRC_E; TIGR03741 1166018008559 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 1166018008560 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 1166018008561 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 1166018008562 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 1166018008563 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 1166018008564 ATP binding site [chemical binding]; other site 1166018008565 substrate interface [chemical binding]; other site 1166018008566 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1166018008567 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 1166018008568 non-specific DNA binding site [nucleotide binding]; other site 1166018008569 salt bridge; other site 1166018008570 sequence-specific DNA binding site [nucleotide binding]; other site 1166018008571 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 1166018008572 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 1166018008573 active site 1166018008574 DNA binding site [nucleotide binding] 1166018008575 Int/Topo IB signature motif; other site 1166018008576 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1166018008577 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1166018008578 Peptidase family M1; Region: Peptidase_M1; pfam01433 1166018008579 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1166018008580 Zn binding site [ion binding]; other site 1166018008581 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1166018008582 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1166018008583 active site 1166018008584 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 1166018008585 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 1166018008586 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1166018008587 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1166018008588 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1166018008589 HIGH motif; other site 1166018008590 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1166018008591 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1166018008592 active site 1166018008593 KMSKS motif; other site 1166018008594 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1166018008595 tRNA binding surface [nucleotide binding]; other site 1166018008596 anticodon binding site; other site 1166018008597 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1166018008598 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1166018008599 active site 1166018008600 metal binding site [ion binding]; metal-binding site 1166018008601 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018008602 Divergent AAA domain; Region: AAA_4; pfam04326 1166018008603 Adenosine deaminase z-alpha domain; Region: z-alpha; cl02659 1166018008604 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1166018008605 EamA-like transporter family; Region: EamA; pfam00892 1166018008606 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1166018008607 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1166018008608 Substrate-binding site [chemical binding]; other site 1166018008609 Substrate specificity [chemical binding]; other site 1166018008610 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018008611 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018008612 MG2 domain; Region: A2M_N; pfam01835 1166018008613 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018008614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1166018008615 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1166018008616 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 1166018008617 Walker A motif; other site 1166018008618 ATP binding site [chemical binding]; other site 1166018008619 Walker B motif; other site 1166018008620 arginine finger; other site 1166018008621 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1166018008622 metal binding site [ion binding]; metal-binding site 1166018008623 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1166018008624 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1166018008625 Ligand binding site; other site 1166018008626 Putative Catalytic site; other site 1166018008627 DXD motif; other site 1166018008628 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 1166018008629 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 1166018008630 putative active site [active] 1166018008631 putative catalytic site [active] 1166018008632 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1166018008633 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1166018008634 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018008635 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 1166018008636 active site 1166018008637 phosphorylation site [posttranslational modification] 1166018008638 intermolecular recognition site; other site 1166018008639 dimerization interface [polypeptide binding]; other site 1166018008640 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018008641 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1166018008642 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1166018008643 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1166018008644 Histidine kinase; Region: His_kinase; pfam06580 1166018008645 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 1166018008646 Mg2+ binding site [ion binding]; other site 1166018008647 G-X-G motif; other site 1166018008648 replicative DNA helicase; Provisional; Region: PRK05636 1166018008649 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 1166018008650 putative substrate binding site [chemical binding]; other site 1166018008651 active site 1166018008652 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1166018008653 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 1166018008654 active site 1166018008655 phosphorylation site [posttranslational modification] 1166018008656 intermolecular recognition site; other site 1166018008657 dimerization interface [polypeptide binding]; other site 1166018008658 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 1166018008659 DNA binding site [nucleotide binding] 1166018008660 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018008661 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 1166018008662 dimerization interface [polypeptide binding]; other site 1166018008663 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 1166018008664 dimer interface [polypeptide binding]; other site 1166018008665 phosphorylation site [posttranslational modification] 1166018008666 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 1166018008667 ATP binding site [chemical binding]; other site 1166018008668 Mg2+ binding site [ion binding]; other site 1166018008669 G-X-G motif; other site 1166018008670 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1166018008671 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018008672 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018008673 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018008674 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 1166018008675 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 1166018008676 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 1166018008677 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1166018008678 hypothetical protein; Provisional; Region: PRK07236 1166018008679 hypothetical protein; Provisional; Region: PRK07588 1166018008680 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1166018008681 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1166018008682 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1166018008683 active site 1166018008684 FMN binding site [chemical binding]; other site 1166018008685 substrate binding site [chemical binding]; other site 1166018008686 putative catalytic residue [active] 1166018008687 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1166018008688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018008689 NAD(P) binding site [chemical binding]; other site 1166018008690 active site 1166018008691 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 1166018008692 putative substrate translocation pore; other site 1166018008693 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018008694 tellurium resistance terB-like protein; Region: terB_like; cd07177 1166018008695 metal binding site [ion binding]; metal-binding site 1166018008696 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1166018008697 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 1166018008698 active site 1166018008699 dimer interface [polypeptide binding]; other site 1166018008700 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1166018008701 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 1166018008702 active site 1166018008703 FMN binding site [chemical binding]; other site 1166018008704 substrate binding site [chemical binding]; other site 1166018008705 3Fe-4S cluster binding site [ion binding]; other site 1166018008706 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 1166018008707 domain interface; other site 1166018008708 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1166018008709 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018008710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018008711 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1166018008712 NAD(P) binding site [chemical binding]; other site 1166018008713 active site 1166018008714 maltose phosphorylase; Provisional; Region: PRK13807 1166018008715 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1166018008716 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1166018008717 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1166018008718 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1166018008719 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 1166018008720 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1166018008721 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 1166018008722 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 1166018008723 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1166018008724 Ca binding site [ion binding]; other site 1166018008725 active site 1166018008726 homodimer interface [polypeptide binding]; other site 1166018008727 catalytic site [active] 1166018008728 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 1166018008729 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1166018008730 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1166018008731 active site 1166018008732 Zn binding site [ion binding]; other site 1166018008733 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1166018008734 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1166018008735 putative di-iron ligands [ion binding]; other site 1166018008736 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1166018008737 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1166018008738 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1166018008739 NADP binding site [chemical binding]; other site 1166018008740 dimer interface [polypeptide binding]; other site 1166018008741 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1166018008742 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1166018008743 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1166018008744 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 1166018008745 anti sigma factor interaction site; other site 1166018008746 regulatory phosphorylation site [posttranslational modification]; other site 1166018008747 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1166018008748 ATP binding site [chemical binding]; other site 1166018008749 active site 1166018008750 substrate binding site [chemical binding]; other site 1166018008751 acetyl-CoA C-acetyltransferase; Region: PLN02644 1166018008752 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 1166018008753 dimer interface [polypeptide binding]; other site 1166018008754 active site 1166018008755 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 1166018008756 binding surface 1166018008757 TPR motif; other site 1166018008758 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 1166018008759 metal ion-dependent adhesion site (MIDAS); other site 1166018008760 TIGR02646 family protein; Region: TIGR02646 1166018008761 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018008762 AAA domain; Region: AAA_21; pfam13304 1166018008763 Walker A/P-loop; other site 1166018008764 ATP binding site [chemical binding]; other site 1166018008765 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1166018008766 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1166018008767 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 1166018008768 ATP binding site [chemical binding]; other site 1166018008769 putative Mg++ binding site [ion binding]; other site 1166018008770 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1166018008771 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1166018008772 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 1166018008773 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1166018008774 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 1166018008775 S-adenosylmethionine binding site [chemical binding]; other site 1166018008776 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1166018008777 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 1166018008778 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 1166018008779 active site 1166018008780 DNA binding site [nucleotide binding] 1166018008781 Int/Topo IB signature motif; other site 1166018008782 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018008783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018008784 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 1166018008785 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1166018008786 active site 1166018008787 catalytic tetrad [active] 1166018008788 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1166018008789 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 1166018008790 PA/protease or protease-like domain interface [polypeptide binding]; other site 1166018008791 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 1166018008792 Peptidase family M28; Region: Peptidase_M28; pfam04389 1166018008793 metal binding site [ion binding]; metal-binding site 1166018008794 WYL domain; Region: WYL; pfam13280 1166018008795 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1166018008796 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 1166018008797 hypothetical protein; Reviewed; Region: PRK09588 1166018008798 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1166018008799 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 1166018008800 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018008801 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018008802 amino acid transporter; Region: 2A0306; TIGR00909 1166018008803 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1166018008804 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 1166018008805 classical (c) SDRs; Region: SDR_c; cd05233 1166018008806 NAD(P) binding site [chemical binding]; other site 1166018008807 active site 1166018008808 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1166018008809 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1166018008810 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018008811 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1166018008812 proposed catalytic triad [active] 1166018008813 active site nucleophile [active] 1166018008814 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018008815 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018008816 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018008817 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018008818 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018008819 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018008820 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1166018008821 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 1166018008822 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 1166018008823 ACT domain; Region: ACT_4; pfam13291 1166018008824 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 1166018008825 binding surface 1166018008826 TPR motif; other site 1166018008827 TPR repeat; Region: TPR_11; pfam13414 1166018008828 TPR repeat; Region: TPR_11; pfam13414 1166018008829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1166018008830 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 1166018008831 dimer interface [polypeptide binding]; other site 1166018008832 phosphorylation site [posttranslational modification] 1166018008833 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 1166018008834 ATP binding site [chemical binding]; other site 1166018008835 Mg2+ binding site [ion binding]; other site 1166018008836 G-X-G motif; other site 1166018008837 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018008838 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 1166018008839 active site 1166018008840 phosphorylation site [posttranslational modification] 1166018008841 intermolecular recognition site; other site 1166018008842 dimerization interface [polypeptide binding]; other site 1166018008843 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1166018008844 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 1166018008845 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1166018008846 SnoaL-like domain; Region: SnoaL_2; pfam12680 1166018008847 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018008848 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018008849 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018008850 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018008851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018008852 NAD(P) binding site [chemical binding]; other site 1166018008853 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1166018008854 active site 1166018008855 trehalose synthase; Region: treS_nterm; TIGR02456 1166018008856 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1166018008857 active site 1166018008858 catalytic site [active] 1166018008859 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1166018008860 mevalonate kinase; Provisional; Region: PRK03926 1166018008861 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1166018008862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 1166018008863 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1166018008864 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1166018008865 putative active site [active] 1166018008866 Zn binding site [ion binding]; other site 1166018008867 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 1166018008868 PAS domain; Region: PAS; smart00091 1166018008869 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1166018008870 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 1166018008871 ATP binding site [chemical binding]; other site 1166018008872 Mg2+ binding site [ion binding]; other site 1166018008873 G-X-G motif; other site 1166018008874 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018008875 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018008876 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1166018008877 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 1166018008878 active site 1166018008879 phosphorylation site [posttranslational modification] 1166018008880 intermolecular recognition site; other site 1166018008881 dimerization interface [polypeptide binding]; other site 1166018008882 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 1166018008883 Walker A motif; other site 1166018008884 ATP binding site [chemical binding]; other site 1166018008885 Walker B motif; other site 1166018008886 arginine finger; other site 1166018008887 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1166018008888 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018008889 FtsX-like permease family; Region: FtsX; pfam02687 1166018008890 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018008891 FtsX-like permease family; Region: FtsX; pfam02687 1166018008892 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1166018008893 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1166018008894 Walker A/P-loop; other site 1166018008895 ATP binding site [chemical binding]; other site 1166018008896 Q-loop/lid; other site 1166018008897 ABC transporter signature motif; other site 1166018008898 Walker B; other site 1166018008899 D-loop; other site 1166018008900 H-loop/switch region; other site 1166018008901 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1166018008902 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018008903 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018008904 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018008905 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018008906 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018008907 Immunoglobulin like; Region: IG_like; smart00410 1166018008908 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018008909 SnoaL-like domain; Region: SnoaL_3; pfam13474 1166018008910 SnoaL-like domain; Region: SnoaL_2; pfam12680 1166018008911 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1166018008912 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1166018008913 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1166018008914 Lipase (class 3). 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...; Region: Lipase_3; cd00519 1166018008915 active site flap/lid [active] 1166018008916 nucleophilic elbow; other site 1166018008917 catalytic triad [active] 1166018008918 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1166018008919 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018008920 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018008921 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018008922 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018008923 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 1166018008924 active site 1166018008925 phosphorylation site [posttranslational modification] 1166018008926 intermolecular recognition site; other site 1166018008927 dimerization interface [polypeptide binding]; other site 1166018008928 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 1166018008929 GAF domain; Region: GAF_3; pfam13492 1166018008930 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 1166018008931 Walker A motif; other site 1166018008932 ATP binding site [chemical binding]; other site 1166018008933 Walker B motif; other site 1166018008934 arginine finger; other site 1166018008935 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018008936 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 1166018008937 binding surface 1166018008938 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018008939 TPR motif; other site 1166018008940 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018008941 Histidine kinase; Region: HisKA_2; pfam07568 1166018008942 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 1166018008943 ATP binding site [chemical binding]; other site 1166018008944 Mg2+ binding site [ion binding]; other site 1166018008945 G-X-G motif; other site 1166018008946 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1166018008947 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1166018008948 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1166018008949 dimerization interface [polypeptide binding]; other site 1166018008950 DPS ferroxidase diiron center [ion binding]; other site 1166018008951 ion pore; other site 1166018008952 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1166018008953 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1166018008954 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1166018008955 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1166018008956 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018008957 Zn binding site [ion binding]; other site 1166018008958 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1166018008959 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018008960 Zn binding site [ion binding]; other site 1166018008961 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1166018008962 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1166018008963 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018008964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1166018008965 Putative esterase; Region: Esterase; pfam00756 1166018008966 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1166018008967 Putative esterase; Region: Esterase; pfam00756 1166018008968 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1166018008969 active site 1166018008970 catalytic residues [active] 1166018008971 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1166018008972 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018008973 Histidine kinase; Region: HisKA_3; pfam07730 1166018008974 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 1166018008975 ATP binding site [chemical binding]; other site 1166018008976 Mg2+ binding site [ion binding]; other site 1166018008977 G-X-G motif; other site 1166018008978 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1166018008979 active site 1166018008980 catalytic residues [active] 1166018008981 Histidine kinase; Region: HisKA_3; pfam07730 1166018008982 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 1166018008983 ATP binding site [chemical binding]; other site 1166018008984 Mg2+ binding site [ion binding]; other site 1166018008985 G-X-G motif; other site 1166018008986 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018008987 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 1166018008988 active site 1166018008989 phosphorylation site [posttranslational modification] 1166018008990 intermolecular recognition site; other site 1166018008991 dimerization interface [polypeptide binding]; other site 1166018008992 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 1166018008993 DNA binding residues [nucleotide binding] 1166018008994 dimerization interface [polypeptide binding]; other site 1166018008995 Kelch motif; Region: Kelch_1; pfam01344 1166018008996 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 1166018008997 Galactose oxidase, central domain; Region: Kelch_3; cl02701 1166018008998 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1166018008999 Predicted esterase [General function prediction only]; Region: COG0627 1166018009000 PAS domain; Region: PAS_9; pfam13426 1166018009001 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1166018009002 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 1166018009003 dimer interface [polypeptide binding]; other site 1166018009004 phosphorylation site [posttranslational modification] 1166018009005 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 1166018009006 ATP binding site [chemical binding]; other site 1166018009007 Mg2+ binding site [ion binding]; other site 1166018009008 G-X-G motif; other site 1166018009009 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1166018009010 NAD(P) binding site [chemical binding]; other site 1166018009011 catalytic residues [active] 1166018009012 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1166018009013 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1166018009014 RimM N-terminal domain; Region: RimM; pfam01782 1166018009015 PRC-barrel domain; Region: PRC; pfam05239 1166018009016 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1166018009017 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1166018009018 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018009019 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1166018009020 Leucine rich repeat; Region: LRR_8; pfam13855 1166018009021 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1166018009022 Leucine rich repeat; Region: LRR_8; pfam13855 1166018009023 Leucine rich repeat; Region: LRR_8; pfam13855 1166018009024 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 1166018009025 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 1166018009026 binding surface 1166018009027 TPR motif; other site 1166018009028 TPR repeat; Region: TPR_11; pfam13414 1166018009029 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018009030 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1166018009031 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1166018009032 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1166018009033 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1166018009034 short chain dehydrogenase; Provisional; Region: PRK06181 1166018009035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018009036 NAD(P) binding site [chemical binding]; other site 1166018009037 active site 1166018009038 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 1166018009039 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018009040 catalytic residues [active] 1166018009041 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 1166018009042 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018009043 catalytic residues [active] 1166018009044 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018009045 Lyase; Region: Lyase_1; pfam00206 1166018009046 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1166018009047 active sites [active] 1166018009048 tetramer interface [polypeptide binding]; other site 1166018009049 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1166018009050 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1166018009051 ligand binding site [chemical binding]; other site 1166018009052 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1166018009053 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 1166018009054 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 1166018009055 TPR motif; other site 1166018009056 binding surface 1166018009057 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018009058 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 1166018009059 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1166018009060 active site 1166018009061 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 1166018009062 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 1166018009063 oligomeric interface; other site 1166018009064 putative active site [active] 1166018009065 homodimer interface [polypeptide binding]; other site 1166018009066 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1166018009067 nucleotide binding site [chemical binding]; other site 1166018009068 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 1166018009069 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 1166018009070 short chain dehydrogenase; Validated; Region: PRK08324 1166018009071 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 1166018009072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018009073 NAD(P) binding site [chemical binding]; other site 1166018009074 active site 1166018009075 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1166018009076 DNA-binding site [nucleotide binding]; DNA binding site 1166018009077 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 1166018009078 putative dimerization interface [polypeptide binding]; other site 1166018009079 putative ligand binding site [chemical binding]; other site 1166018009080 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1166018009081 rhamnose-proton symporter; Provisional; Region: PRK13499 1166018009082 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 1166018009083 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1166018009084 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1166018009085 RCSD region; Region: RCSD; pfam05177 1166018009086 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1166018009087 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1166018009088 catalytic site [active] 1166018009089 active site 1166018009090 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1166018009091 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1166018009092 dimanganese center [ion binding]; other site 1166018009093 PAS domain; Region: PAS_9; pfam13426 1166018009094 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018009095 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 1166018009096 dimer interface [polypeptide binding]; other site 1166018009097 phosphorylation site [posttranslational modification] 1166018009098 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018009099 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018009100 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018009101 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 1166018009102 active site 1166018009103 phosphorylation site [posttranslational modification] 1166018009104 intermolecular recognition site; other site 1166018009105 dimerization interface [polypeptide binding]; other site 1166018009106 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1166018009107 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 1166018009108 putative active site [active] 1166018009109 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1166018009110 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018009111 Walker A/P-loop; other site 1166018009112 ATP binding site [chemical binding]; other site 1166018009113 Q-loop/lid; other site 1166018009114 ABC transporter signature motif; other site 1166018009115 Walker B; other site 1166018009116 D-loop; other site 1166018009117 H-loop/switch region; other site 1166018009118 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1166018009119 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018009120 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018009121 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1166018009122 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 1166018009123 non-specific DNA binding site [nucleotide binding]; other site 1166018009124 salt bridge; other site 1166018009125 sequence-specific DNA binding site [nucleotide binding]; other site 1166018009126 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1166018009127 Transglycosylase; Region: Transgly; pfam00912 1166018009128 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1166018009129 TPR repeat; Region: TPR_11; pfam13414 1166018009130 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 1166018009131 binding surface 1166018009132 TPR motif; other site 1166018009133 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1166018009134 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1166018009135 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 1166018009136 active site 1166018009137 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 1166018009138 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018009139 catalytic residues [active] 1166018009140 phosphodiesterase; Provisional; Region: PRK12704 1166018009141 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 1166018009142 putative di-iron ligands [ion binding]; other site 1166018009143 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1166018009144 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1166018009145 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1166018009146 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 1166018009147 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1166018009148 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 1166018009149 Ca binding site [ion binding]; other site 1166018009150 active site 1166018009151 catalytic site [active] 1166018009152 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1166018009153 pyruvate carboxylase; Reviewed; Region: PRK12999 1166018009154 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1166018009155 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1166018009156 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1166018009157 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1166018009158 active site 1166018009159 catalytic residues [active] 1166018009160 metal binding site [ion binding]; metal-binding site 1166018009161 homodimer binding site [polypeptide binding]; other site 1166018009162 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 1166018009163 carboxyltransferase (CT) interaction site; other site 1166018009164 biotinylation site [posttranslational modification]; other site 1166018009165 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1166018009166 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 1166018009167 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 1166018009168 PA/protease or protease-like domain interface [polypeptide binding]; other site 1166018009169 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 1166018009170 Peptidase family M28; Region: Peptidase_M28; pfam04389 1166018009171 metal binding site [ion binding]; metal-binding site 1166018009172 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 1166018009173 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1166018009174 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1166018009175 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1166018009176 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 1166018009177 ligand binding site [chemical binding]; other site 1166018009178 flexible hinge region; other site 1166018009179 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 1166018009180 active site 1166018009181 catalytic triad [active] 1166018009182 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 1166018009183 dimer interface [polypeptide binding]; other site 1166018009184 ADP-ribose binding site [chemical binding]; other site 1166018009185 active site 1166018009186 nudix motif; other site 1166018009187 metal binding site [ion binding]; metal-binding site 1166018009188 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1166018009189 classical (c) SDRs; Region: SDR_c; cd05233 1166018009190 NAD(P) binding site [chemical binding]; other site 1166018009191 active site 1166018009192 WzyE protein; Region: WzyE; cl11643 1166018009193 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1166018009194 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1166018009195 VPS10 domain; Region: VPS10; smart00602 1166018009196 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1166018009197 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 1166018009198 putative active site [active] 1166018009199 putative NTP binding site [chemical binding]; other site 1166018009200 putative nucleic acid binding site [nucleotide binding]; other site 1166018009201 WGR domain of bacterial DNA ligases; Region: WGR_DNA_ligase; cd07998 1166018009202 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1166018009203 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018009204 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018009205 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 1166018009206 DNA binding residues [nucleotide binding] 1166018009207 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 1166018009208 putative active site [active] 1166018009209 Zn binding site [ion binding]; other site 1166018009210 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018009211 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018009212 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1166018009213 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1166018009214 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 1166018009215 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 1166018009216 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018009217 catalytic residues [active] 1166018009218 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1166018009219 dimer interface [polypeptide binding]; other site 1166018009220 catalytic triad [active] 1166018009221 Inward rectifier potassium channel; Region: IRK; pfam01007 1166018009222 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018009223 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 1166018009224 putative active site [active] 1166018009225 putative metal binding site [ion binding]; other site 1166018009226 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 1166018009227 active site 1166018009228 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1166018009229 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1166018009230 motif 1; other site 1166018009231 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1166018009232 active site 1166018009233 motif 2; other site 1166018009234 motif 3; other site 1166018009235 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 1166018009236 anticodon binding site; other site 1166018009237 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1166018009238 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1166018009239 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1166018009240 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1166018009241 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1166018009242 FtsX-like permease family; Region: FtsX; pfam02687 1166018009243 Ribosome-binding factor A; Region: RBFA; pfam02033 1166018009244 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1166018009245 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 1166018009246 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018009247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018009248 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018009249 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018009250 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018009251 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018009252 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018009253 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018009254 SusE outer membrane protein; Region: SusE; pfam14292 1166018009255 Uncharacterized subgroup of the CBM-SusE-F_like superfamily; Region: CBM_SusE-F_like_u1; cd12967 1166018009256 starch binding site [chemical binding]; other site 1166018009257 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cd12956 1166018009258 starch binding site [chemical binding]; other site 1166018009259 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 1166018009260 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1166018009261 FeS/SAM binding site; other site 1166018009262 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1166018009263 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018009264 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018009265 SusD family; Region: SusD; pfam07980 1166018009266 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018009267 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018009268 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018009269 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018009270 hypothetical protein; Provisional; Region: PRK12378 1166018009271 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1166018009272 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1166018009273 active site 1166018009274 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1166018009275 substrate binding site [chemical binding]; other site 1166018009276 catalytic residues [active] 1166018009277 dimer interface [polypeptide binding]; other site 1166018009278 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1166018009279 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1166018009280 active site 1166018009281 HIGH motif; other site 1166018009282 nucleotide binding site [chemical binding]; other site 1166018009283 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1166018009284 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1166018009285 KMSK motif region; other site 1166018009286 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1166018009287 tRNA binding surface [nucleotide binding]; other site 1166018009288 anticodon binding site; other site 1166018009289 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 1166018009290 catalytic residues [active] 1166018009291 dimer interface [polypeptide binding]; other site 1166018009292 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1166018009293 UbiA prenyltransferase family; Region: UbiA; pfam01040 1166018009294 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018009295 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018009296 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018009297 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1166018009298 Protein export membrane protein; Region: SecD_SecF; cl14618 1166018009299 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1166018009300 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 1166018009301 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1166018009302 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1166018009303 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1166018009304 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1166018009305 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 1166018009306 putative Zn2+ binding site [ion binding]; other site 1166018009307 putative DNA binding site [nucleotide binding]; other site 1166018009308 dimerization interface [polypeptide binding]; other site 1166018009309 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 1166018009310 Amidinotransferase; Region: Amidinotransf; pfam02274 1166018009311 Amidinotransferase; Region: Amidinotransf; cl12043 1166018009312 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1166018009313 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018009314 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018009315 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 1166018009316 N-terminal plug; other site 1166018009317 ligand-binding site [chemical binding]; other site 1166018009318 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1166018009319 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1166018009320 dimerization interface [polypeptide binding]; other site 1166018009321 DPS ferroxidase diiron center [ion binding]; other site 1166018009322 ion pore; other site 1166018009323 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1166018009324 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1166018009325 oligomer interface [polypeptide binding]; other site 1166018009326 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 1166018009327 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018009328 putative substrate translocation pore; other site 1166018009329 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1166018009330 DNA-binding site [nucleotide binding]; DNA binding site 1166018009331 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1166018009332 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1166018009333 Walker A/P-loop; other site 1166018009334 ATP binding site [chemical binding]; other site 1166018009335 Q-loop/lid; other site 1166018009336 ABC transporter signature motif; other site 1166018009337 Walker B; other site 1166018009338 D-loop; other site 1166018009339 H-loop/switch region; other site 1166018009340 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1166018009341 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1166018009342 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1166018009343 Predicted membrane protein [Function unknown]; Region: COG2259 1166018009344 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1166018009345 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1166018009346 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1166018009347 DNA-binding site [nucleotide binding]; DNA binding site 1166018009348 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1166018009349 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1166018009350 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 1166018009351 putative substrate translocation pore; other site 1166018009352 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 1166018009353 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018009354 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018009355 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018009356 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018009357 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018009358 SusD family; Region: SusD; pfam07980 1166018009359 SusE outer membrane protein; Region: SusE; pfam14292 1166018009360 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 1166018009361 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1166018009362 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1166018009363 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; pfam03663 1166018009364 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1166018009365 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1166018009366 nucleotide binding site [chemical binding]; other site 1166018009367 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1166018009368 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1166018009369 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1166018009370 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 1166018009371 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1166018009372 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1166018009373 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1166018009374 putative molybdopterin cofactor binding site [chemical binding]; other site 1166018009375 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1166018009376 putative molybdopterin cofactor binding site; other site 1166018009377 CotH protein; Region: CotH; pfam08757 1166018009378 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1166018009379 Domain of unknown function DUF21; Region: DUF21; pfam01595 1166018009380 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 1166018009381 Transporter associated domain; Region: CorC_HlyC; smart01091 1166018009382 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 1166018009383 active site 1166018009384 Ap6A binding site [chemical binding]; other site 1166018009385 nudix motif; other site 1166018009386 metal binding site [ion binding]; metal-binding site 1166018009387 shikimate kinase; Reviewed; Region: aroK; PRK00131 1166018009388 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 1166018009389 ADP binding site [chemical binding]; other site 1166018009390 magnesium binding site [ion binding]; other site 1166018009391 putative shikimate binding site; other site 1166018009392 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 1166018009393 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 1166018009394 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 1166018009395 dihydropteroate synthase; Region: DHPS; TIGR01496 1166018009396 substrate binding pocket [chemical binding]; other site 1166018009397 dimer interface [polypeptide binding]; other site 1166018009398 inhibitor binding site; inhibition site 1166018009399 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 1166018009400 active site 1166018009401 DNA binding site [nucleotide binding] 1166018009402 Int/Topo IB signature motif; other site 1166018009403 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1166018009404 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 1166018009405 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 1166018009406 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1166018009407 Cadherin repeat-like domain; Region: CA_like; cl15786 1166018009408 Ca2+ binding site [ion binding]; other site 1166018009409 Peptidase M15; Region: Peptidase_M15_3; cl01194 1166018009410 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1166018009411 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 1166018009412 putative active site [active] 1166018009413 catalytic site [active] 1166018009414 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1166018009415 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1166018009416 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1166018009417 tandem repeat interface [polypeptide binding]; other site 1166018009418 oligomer interface [polypeptide binding]; other site 1166018009419 active site residues [active] 1166018009420 Domain of unknown function (DUF1935); Region: DUF1935; pfam09149 1166018009421 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1166018009422 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 1166018009423 non-specific DNA binding site [nucleotide binding]; other site 1166018009424 salt bridge; other site 1166018009425 sequence-specific DNA binding site [nucleotide binding]; other site 1166018009426 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1166018009427 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 1166018009428 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1166018009429 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1166018009430 Probable Catalytic site; other site 1166018009431 metal-binding site 1166018009432 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 1166018009433 dimerization interface [polypeptide binding]; other site 1166018009434 metal binding site [ion binding]; metal-binding site 1166018009435 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 1166018009436 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 1166018009437 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 1166018009438 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 1166018009439 homoserine kinase; Provisional; Region: PRK01212 1166018009440 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1166018009441 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 1166018009442 putative transporter; Provisional; Region: PRK10484 1166018009443 Na binding site [ion binding]; other site 1166018009444 substrate binding site [chemical binding]; other site 1166018009445 PAS fold; Region: PAS_3; pfam08447 1166018009446 PAS domain S-box; Region: sensory_box; TIGR00229 1166018009447 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 1166018009448 putative active site [active] 1166018009449 heme pocket [chemical binding]; other site 1166018009450 PAS domain; Region: PAS_9; pfam13426 1166018009451 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 1166018009452 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 1166018009453 putative active site [active] 1166018009454 heme pocket [chemical binding]; other site 1166018009455 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 1166018009456 dimer interface [polypeptide binding]; other site 1166018009457 phosphorylation site [posttranslational modification] 1166018009458 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 1166018009459 ATP binding site [chemical binding]; other site 1166018009460 Mg2+ binding site [ion binding]; other site 1166018009461 G-X-G motif; other site 1166018009462 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1166018009463 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1166018009464 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1166018009465 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1166018009466 active site 1166018009467 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1166018009468 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018009469 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1166018009470 NmrA-like family; Region: NmrA; pfam05368 1166018009471 NADP binding site [chemical binding]; other site 1166018009472 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 1166018009473 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1166018009474 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1166018009475 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 1166018009476 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 1166018009477 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018009478 HEAT repeats; Region: HEAT_2; pfam13646 1166018009479 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 1166018009480 protein binding surface [polypeptide binding]; other site 1166018009481 HEAT repeats; Region: HEAT_2; pfam13646 1166018009482 HEAT repeats; Region: HEAT_2; pfam13646 1166018009483 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1166018009484 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 1166018009485 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1166018009486 peptidase T; Region: peptidase-T; TIGR01882 1166018009487 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1166018009488 metal binding site [ion binding]; metal-binding site 1166018009489 dimer interface [polypeptide binding]; other site 1166018009490 MarC family integral membrane protein; Region: MarC; cl00919 1166018009491 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1166018009492 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018009493 catalytic residue [active] 1166018009494 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 1166018009495 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1166018009496 active site 1166018009497 trimer interface [polypeptide binding]; other site 1166018009498 dimer interface [polypeptide binding]; other site 1166018009499 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 1166018009500 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1166018009501 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 1166018009502 N-terminal plug; other site 1166018009503 ligand-binding site [chemical binding]; other site 1166018009504 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1166018009505 active site 1166018009506 PAP2_like_1 proteins, a sub-family of PAP2, containing bacterial acid phosphatase, vanadium chloroperoxidases and vanadium bromoperoxidases; Region: PAP2_like_1; cd03380 1166018009507 active site 1166018009508 short chain dehydrogenase; Provisional; Region: PRK06181 1166018009509 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 1166018009510 NADP binding site [chemical binding]; other site 1166018009511 homodimer interface [polypeptide binding]; other site 1166018009512 substrate binding site [chemical binding]; other site 1166018009513 active site 1166018009514 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 1166018009515 trimer interface [polypeptide binding]; other site 1166018009516 dimer interface [polypeptide binding]; other site 1166018009517 putative active site [active] 1166018009518 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 1166018009519 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 1166018009520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018009521 homodimer interface [polypeptide binding]; other site 1166018009522 catalytic residue [active] 1166018009523 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1166018009524 Family description; Region: UvrD_C_2; pfam13538 1166018009525 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1166018009526 active site 1166018009527 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 1166018009528 FAD binding site [chemical binding]; other site 1166018009529 Divergent AAA domain; Region: AAA_4; pfam04326 1166018009530 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1166018009531 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1166018009532 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018009533 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 1166018009534 active site 1166018009535 phosphorylation site [posttranslational modification] 1166018009536 intermolecular recognition site; other site 1166018009537 dimerization interface [polypeptide binding]; other site 1166018009538 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018009539 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 1166018009540 binding surface 1166018009541 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018009542 TPR motif; other site 1166018009543 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018009544 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018009545 Histidine kinase; Region: HisKA_2; pfam07568 1166018009546 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 1166018009547 Mg2+ binding site [ion binding]; other site 1166018009548 G-X-G motif; other site 1166018009549 Two component regulator propeller; Region: Reg_prop; pfam07494 1166018009550 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1166018009551 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018009552 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 1166018009553 dimer interface [polypeptide binding]; other site 1166018009554 phosphorylation site [posttranslational modification] 1166018009555 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 1166018009556 ATP binding site [chemical binding]; other site 1166018009557 Mg2+ binding site [ion binding]; other site 1166018009558 G-X-G motif; other site 1166018009559 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018009560 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 1166018009561 active site 1166018009562 phosphorylation site [posttranslational modification] 1166018009563 intermolecular recognition site; other site 1166018009564 dimerization interface [polypeptide binding]; other site 1166018009565 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018009566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018009567 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 1166018009568 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1166018009569 active site 1166018009570 metal binding site [ion binding]; metal-binding site 1166018009571 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar3; cd08577 1166018009572 putative active site [active] 1166018009573 catalytic site [active] 1166018009574 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 1166018009575 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1166018009576 active site 1166018009577 dimer interface [polypeptide binding]; other site 1166018009578 Ion channel; Region: Ion_trans_2; pfam07885 1166018009579 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 1166018009580 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018009581 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018009582 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018009583 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018009584 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018009585 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018009586 Pectate lyase; Region: Pec_lyase_C; cl01593 1166018009587 putative pectinesterase; Region: PLN02432; cl01911 1166018009588 Abhydrolase family; Region: Abhydrolase_7; pfam12715 1166018009589 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1166018009590 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 1166018009591 active site 1166018009592 catalytic triad [active] 1166018009593 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1166018009594 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1166018009595 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1166018009596 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1166018009597 DNA binding site [nucleotide binding] 1166018009598 domain linker motif; other site 1166018009599 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1166018009600 dimerization interface [polypeptide binding]; other site 1166018009601 ligand binding site [chemical binding]; other site 1166018009602 altronate oxidoreductase; Provisional; Region: PRK03643 1166018009603 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1166018009604 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1166018009605 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 1166018009606 D-galactonate transporter; Region: 2A0114; TIGR00893 1166018009607 putative substrate translocation pore; other site 1166018009608 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 1166018009609 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 1166018009610 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1166018009611 NADP binding site [chemical binding]; other site 1166018009612 homodimer interface [polypeptide binding]; other site 1166018009613 active site 1166018009614 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 1166018009615 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1166018009616 AAA domain; Region: AAA_28; pfam13521 1166018009617 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1166018009618 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1166018009619 pseudouridine synthase; Region: TIGR00093 1166018009620 active site 1166018009621 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1166018009622 putative active site [active] 1166018009623 putative catalytic site [active] 1166018009624 putative DNA binding site [nucleotide binding]; other site 1166018009625 putative phosphate binding site [ion binding]; other site 1166018009626 metal binding site A [ion binding]; metal-binding site 1166018009627 putative AP binding site [nucleotide binding]; other site 1166018009628 putative metal binding site B [ion binding]; other site 1166018009629 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1166018009630 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1166018009631 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1166018009632 ligand binding site [chemical binding]; other site 1166018009633 SurA N-terminal domain; Region: SurA_N; pfam09312 1166018009634 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1166018009635 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1166018009636 MoxR-like ATPases [General function prediction only]; Region: COG0714 1166018009637 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 1166018009638 Walker A motif; other site 1166018009639 ATP binding site [chemical binding]; other site 1166018009640 Walker B motif; other site 1166018009641 arginine finger; other site 1166018009642 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1166018009643 Ligand binding site; other site 1166018009644 metal-binding site 1166018009645 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1166018009646 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1166018009647 dimerization interface 3.5A [polypeptide binding]; other site 1166018009648 active site 1166018009649 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; cl01898 1166018009650 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1166018009651 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 1166018009652 dimerization interface [polypeptide binding]; other site 1166018009653 ATP binding site [chemical binding]; other site 1166018009654 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 1166018009655 dimerization interface [polypeptide binding]; other site 1166018009656 ATP binding site [chemical binding]; other site 1166018009657 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 1166018009658 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 1166018009659 DNA binding site [nucleotide binding] 1166018009660 active site 1166018009661 Int/Topo IB signature motif; other site 1166018009662 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018009663 AAA domain; Region: AAA_21; pfam13304 1166018009664 Walker A/P-loop; other site 1166018009665 ATP binding site [chemical binding]; other site 1166018009666 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1166018009667 DNA methylase; Region: N6_N4_Mtase; pfam01555 1166018009668 Terminase-like family; Region: Terminase_6; pfam03237 1166018009669 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 1166018009670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018009671 active site 1166018009672 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 1166018009673 active site 1166018009674 DNA binding site [nucleotide binding] 1166018009675 Int/Topo IB signature motif; other site 1166018009676 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1166018009677 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1166018009678 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 1166018009679 motif II; other site 1166018009680 TraB family; Region: TraB; pfam01963 1166018009681 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 1166018009682 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 1166018009683 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1166018009684 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 1166018009685 MarR family; Region: MarR; pfam01047 1166018009686 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018009687 glutamine synthetase; Region: PLN02284 1166018009688 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1166018009689 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1166018009690 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1166018009691 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1166018009692 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018009693 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1166018009694 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1166018009695 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 1166018009696 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 1166018009697 FeS/SAM binding site; other site 1166018009698 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 1166018009699 Ligand Binding Site [chemical binding]; other site 1166018009700 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 1166018009701 Ligand Binding Site [chemical binding]; other site 1166018009702 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1166018009703 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1166018009704 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018009705 Histidine kinase; Region: HisKA_2; pfam07568 1166018009706 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 1166018009707 ATP binding site [chemical binding]; other site 1166018009708 Mg2+ binding site [ion binding]; other site 1166018009709 G-X-G motif; other site 1166018009710 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1166018009711 active site 1166018009712 catalytic residues [active] 1166018009713 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1166018009714 Leucine-rich repeats; other site 1166018009715 Substrate binding site [chemical binding]; other site 1166018009716 Leucine rich repeat; Region: LRR_8; pfam13855 1166018009717 Leucine rich repeat; Region: LRR_8; pfam13855 1166018009718 Leucine rich repeat; Region: LRR_8; pfam13855 1166018009719 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1166018009720 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1166018009721 Moco binding site; other site 1166018009722 metal coordination site [ion binding]; other site 1166018009723 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1166018009724 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1166018009725 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1166018009726 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1166018009727 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1166018009728 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1166018009729 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1166018009730 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1166018009731 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1166018009732 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018009733 Beta-lactamase; Region: Beta-lactamase; pfam00144 1166018009734 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 1166018009735 binding surface 1166018009736 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1166018009737 TPR motif; other site 1166018009738 PAS fold; Region: PAS_4; pfam08448 1166018009739 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1166018009740 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 1166018009741 dimer interface [polypeptide binding]; other site 1166018009742 phosphorylation site [posttranslational modification] 1166018009743 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 1166018009744 ATP binding site [chemical binding]; other site 1166018009745 Mg2+ binding site [ion binding]; other site 1166018009746 G-X-G motif; other site 1166018009747 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1166018009748 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1166018009749 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 1166018009750 tetramer interface [polypeptide binding]; other site 1166018009751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018009752 catalytic residue [active] 1166018009753 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1166018009754 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018009755 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 1166018009756 dimer interface [polypeptide binding]; other site 1166018009757 phosphorylation site [posttranslational modification] 1166018009758 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 1166018009759 ATP binding site [chemical binding]; other site 1166018009760 Mg2+ binding site [ion binding]; other site 1166018009761 G-X-G motif; other site 1166018009762 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1166018009763 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1166018009764 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 1166018009765 dimer interface [polypeptide binding]; other site 1166018009766 motif 1; other site 1166018009767 active site 1166018009768 motif 2; other site 1166018009769 motif 3; other site 1166018009770 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1166018009771 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 1166018009772 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 1166018009773 FeS/SAM binding site; other site 1166018009774 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 1166018009775 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1166018009776 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 1166018009777 S-adenosylmethionine binding site [chemical binding]; other site 1166018009778 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1166018009779 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 1166018009780 DinB family; Region: DinB; cl17821 1166018009781 DinB superfamily; Region: DinB_2; pfam12867 1166018009782 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 1166018009783 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018009784 ligand binding site [chemical binding]; other site 1166018009785 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1166018009786 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018009787 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018009788 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018009789 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1166018009790 phosphate binding site [ion binding]; other site 1166018009791 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1166018009792 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1166018009793 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018009794 catalytic residue [active] 1166018009795 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 1166018009796 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1166018009797 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 1166018009798 amidase catalytic site [active] 1166018009799 Zn binding residues [ion binding]; other site 1166018009800 substrate binding site [chemical binding]; other site 1166018009801 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1166018009802 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 1166018009803 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018009804 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018009805 ligand binding site [chemical binding]; other site 1166018009806 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 1166018009807 ArsC family; Region: ArsC; pfam03960 1166018009808 putative catalytic residues [active] 1166018009809 Predicted transcriptional regulators [Transcription]; Region: COG1695 1166018009810 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1166018009811 PspC domain; Region: PspC; pfam04024 1166018009812 PspC domain; Region: PspC; pfam04024 1166018009813 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 1166018009814 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 1166018009815 Ligand Binding Site [chemical binding]; other site 1166018009816 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 1166018009817 TPR repeat; Region: TPR_11; pfam13414 1166018009818 binding surface 1166018009819 TPR motif; other site 1166018009820 TPR repeat; Region: TPR_11; pfam13414 1166018009821 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 1166018009822 binding surface 1166018009823 TPR motif; other site 1166018009824 TPR repeat; Region: TPR_11; pfam13414 1166018009825 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 1166018009826 binding surface 1166018009827 TPR repeat; Region: TPR_11; pfam13414 1166018009828 TPR motif; other site 1166018009829 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 1166018009830 Smr domain; Region: Smr; pfam01713 1166018009831 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018009832 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018009833 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 1166018009834 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1166018009835 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1166018009836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018009837 Walker A/P-loop; other site 1166018009838 ATP binding site [chemical binding]; other site 1166018009839 Q-loop/lid; other site 1166018009840 ABC transporter signature motif; other site 1166018009841 Walker B; other site 1166018009842 D-loop; other site 1166018009843 H-loop/switch region; other site 1166018009844 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 1166018009845 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 1166018009846 CAP-like domain; other site 1166018009847 active site 1166018009848 primary dimer interface [polypeptide binding]; other site 1166018009849 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 1166018009850 putative active site [active] 1166018009851 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 1166018009852 metal-binding site [ion binding] 1166018009853 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018009854 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018009855 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018009856 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1166018009857 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018009858 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 1166018009859 nucleoside/Zn binding site; other site 1166018009860 dimer interface [polypeptide binding]; other site 1166018009861 catalytic motif [active] 1166018009862 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1166018009863 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1166018009864 Thiamine pyrophosphokinase; Region: TPK; cd07995 1166018009865 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1166018009866 active site 1166018009867 dimerization interface [polypeptide binding]; other site 1166018009868 thiamine binding site [chemical binding]; other site 1166018009869 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1166018009870 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 1166018009871 non-specific DNA binding site [nucleotide binding]; other site 1166018009872 salt bridge; other site 1166018009873 sequence-specific DNA binding site [nucleotide binding]; other site 1166018009874 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1166018009875 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 1166018009876 NAD(P) binding site [chemical binding]; other site 1166018009877 catalytic residues [active] 1166018009878 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1166018009879 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 1166018009880 active site 1166018009881 intersubunit interface [polypeptide binding]; other site 1166018009882 zinc binding site [ion binding]; other site 1166018009883 Na+ binding site [ion binding]; other site 1166018009884 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 1166018009885 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 1166018009886 inhibitor-cofactor binding pocket; inhibition site 1166018009887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018009888 catalytic residue [active] 1166018009889 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1166018009890 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1166018009891 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1166018009892 conserved cys residue [active] 1166018009893 carboxylate-amine ligase; Provisional; Region: PRK13515 1166018009894 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1166018009895 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 1166018009896 B12 binding site [chemical binding]; other site 1166018009897 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1166018009898 PhoD-like phosphatase; Region: PhoD; pfam09423 1166018009899 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1166018009900 putative active site [active] 1166018009901 putative metal binding site [ion binding]; other site 1166018009902 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1166018009903 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 1166018009904 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 1166018009905 dimer interface [polypeptide binding]; other site 1166018009906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018009907 catalytic residue [active] 1166018009908 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 1166018009909 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 1166018009910 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1166018009911 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1166018009912 active site 1166018009913 HIGH motif; other site 1166018009914 nucleotide binding site [chemical binding]; other site 1166018009915 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1166018009916 KMSKS motif; other site 1166018009917 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1166018009918 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1166018009919 Zn binding site [ion binding]; other site 1166018009920 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018009921 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018009922 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1166018009923 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 1166018009924 DNA binding site [nucleotide binding] 1166018009925 active site 1166018009926 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 1166018009927 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1166018009928 putative catalytic site [active] 1166018009929 putative metal binding site [ion binding]; other site 1166018009930 putative phosphate binding site [ion binding]; other site 1166018009931 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1166018009932 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 1166018009933 N-terminal plug; other site 1166018009934 ligand-binding site [chemical binding]; other site 1166018009935 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1166018009936 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1166018009937 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1166018009938 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1166018009939 ligand binding site [chemical binding]; other site 1166018009940 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018009941 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1166018009942 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018009943 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 1166018009944 putative active site [active] 1166018009945 PAS fold; Region: PAS_3; pfam08447 1166018009946 heme pocket [chemical binding]; other site 1166018009947 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 1166018009948 dimer interface [polypeptide binding]; other site 1166018009949 phosphorylation site [posttranslational modification] 1166018009950 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 1166018009951 ATP binding site [chemical binding]; other site 1166018009952 Mg2+ binding site [ion binding]; other site 1166018009953 G-X-G motif; other site 1166018009954 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1166018009955 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1166018009956 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1166018009957 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018009958 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018009959 Interdomain contacts; other site 1166018009960 Cytokine receptor motif; other site 1166018009961 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018009962 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018009963 Interdomain contacts; other site 1166018009964 Cytokine receptor motif; other site 1166018009965 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018009966 Interdomain contacts; other site 1166018009967 Cytokine receptor motif; other site 1166018009968 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018009969 Interdomain contacts; other site 1166018009970 Cytokine receptor motif; other site 1166018009971 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018009972 Interdomain contacts; other site 1166018009973 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018009974 Interdomain contacts; other site 1166018009975 Cytokine receptor motif; other site 1166018009976 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018009977 TANFOR domain; Region: T_forsyth_147; TIGR02542 1166018009978 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018009979 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 1166018009980 active site 1166018009981 phosphorylation site [posttranslational modification] 1166018009982 intermolecular recognition site; other site 1166018009983 dimerization interface [polypeptide binding]; other site 1166018009984 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 1166018009985 DNA binding residues [nucleotide binding] 1166018009986 dimerization interface [polypeptide binding]; other site 1166018009987 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1166018009988 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 1166018009989 RNA binding surface [nucleotide binding]; other site 1166018009990 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1166018009991 active site 1166018009992 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1166018009993 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1166018009994 active site 1166018009995 nucleophile elbow; other site 1166018009996 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1166018009997 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1166018009998 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1166018009999 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1166018010000 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 1166018010001 Predicted transcriptional regulators [Transcription]; Region: COG1733 1166018010002 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1166018010003 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1166018010004 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1166018010005 catalytic residues [active] 1166018010006 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1166018010007 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 1166018010008 catalytic residues [active] 1166018010009 catalytic nucleophile [active] 1166018010010 Presynaptic Site I dimer interface [polypeptide binding]; other site 1166018010011 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1166018010012 Synaptic Flat tetramer interface [polypeptide binding]; other site 1166018010013 Synaptic Site I dimer interface [polypeptide binding]; other site 1166018010014 DNA binding site [nucleotide binding] 1166018010015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018010016 Walker A/P-loop; other site 1166018010017 ATP binding site [chemical binding]; other site 1166018010018 AAA domain; Region: AAA_21; pfam13304 1166018010019 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1166018010020 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1166018010021 Zn2+ binding site [ion binding]; other site 1166018010022 Mg2+ binding site [ion binding]; other site 1166018010023 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1166018010024 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1166018010025 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 1166018010026 trimer interface [polypeptide binding]; other site 1166018010027 active site 1166018010028 UDP-GlcNAc binding site [chemical binding]; other site 1166018010029 lipid binding site [chemical binding]; lipid-binding site 1166018010030 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 1166018010031 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1166018010032 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 1166018010033 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1166018010034 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 1166018010035 active site 1166018010036 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018010037 Walker A/P-loop; other site 1166018010038 ATP binding site [chemical binding]; other site 1166018010039 ABC transporter; Region: ABC_tran; pfam00005 1166018010040 Q-loop/lid; other site 1166018010041 ABC transporter signature motif; other site 1166018010042 Walker B; other site 1166018010043 D-loop; other site 1166018010044 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1166018010045 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1166018010046 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018010047 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018010048 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018010049 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018010050 ligand binding site [chemical binding]; other site 1166018010051 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1166018010052 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 1166018010053 Ligand Binding Site [chemical binding]; other site 1166018010054 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1166018010055 OstA-like protein; Region: OstA_2; pfam13100 1166018010056 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018010057 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1166018010058 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 1166018010059 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1166018010060 Flavoprotein; Region: Flavoprotein; pfam02441 1166018010061 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1166018010062 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1166018010063 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1166018010064 Walker A/P-loop; other site 1166018010065 ATP binding site [chemical binding]; other site 1166018010066 Q-loop/lid; other site 1166018010067 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1166018010068 ABC transporter signature motif; other site 1166018010069 Walker B; other site 1166018010070 D-loop; other site 1166018010071 H-loop/switch region; other site 1166018010072 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1166018010073 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 1166018010074 Cu(I) binding site [ion binding]; other site 1166018010075 Cytochrome c; Region: Cytochrom_C; pfam00034 1166018010076 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1166018010077 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1166018010078 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1166018010079 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 1166018010080 putative SAM binding site [chemical binding]; other site 1166018010081 homodimer interface [polypeptide binding]; other site 1166018010082 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1166018010083 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1166018010084 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1166018010085 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1166018010086 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1166018010087 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 1166018010088 dimer interface [polypeptide binding]; other site 1166018010089 active site 1166018010090 CoA binding pocket [chemical binding]; other site 1166018010091 Cupin domain; Region: Cupin_2; cl17218 1166018010092 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018010093 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018010094 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 1166018010095 putative substrate translocation pore; other site 1166018010096 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1166018010097 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1166018010098 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 1166018010099 motif II; other site 1166018010100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1166018010101 MOSC domain; Region: MOSC; pfam03473 1166018010102 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018010103 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 1166018010104 active site 1166018010105 phosphorylation site [posttranslational modification] 1166018010106 intermolecular recognition site; other site 1166018010107 dimerization interface [polypeptide binding]; other site 1166018010108 PglZ domain; Region: PglZ; pfam08665 1166018010109 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1166018010110 active site 1166018010111 HIGH motif; other site 1166018010112 nucleotide binding site [chemical binding]; other site 1166018010113 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1166018010114 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1166018010115 Ligand binding site; other site 1166018010116 oligomer interface; other site 1166018010117 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 1166018010118 active site 1166018010119 DNA binding site [nucleotide binding] 1166018010120 Int/Topo IB signature motif; other site 1166018010121 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 1166018010122 non-specific DNA binding site [nucleotide binding]; other site 1166018010123 salt bridge; other site 1166018010124 sequence-specific DNA binding site [nucleotide binding]; other site 1166018010125 hypothetical protein; Validated; Region: PRK08116 1166018010126 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 1166018010127 RNA ligase; Region: RNA_ligase; pfam09414 1166018010128 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 1166018010129 Protein of unknown function (DUF550); Region: DUF550; pfam04447 1166018010130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 1166018010131 Phage terminase large subunit; Region: Terminase_3; cl12054 1166018010132 Phage portal protein; Region: Phage_portal; pfam04860 1166018010133 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 1166018010134 PGAP1-like protein; Region: PGAP1; pfam07819 1166018010135 Domain found in IF2B/IF5; Region: eIF-5_eIF-2B; cl17014 1166018010136 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 1166018010137 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 1166018010138 AAA domain; Region: AAA_22; pfam13401 1166018010139 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 1166018010140 non-specific DNA binding site [nucleotide binding]; other site 1166018010141 salt bridge; other site 1166018010142 sequence-specific DNA binding site [nucleotide binding]; other site 1166018010143 AntA/AntB antirepressor; Region: AntA; pfam08346 1166018010144 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1166018010145 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1166018010146 Probable transposase; Region: OrfB_IS605; pfam01385 1166018010147 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1166018010148 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1166018010149 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1166018010150 Probable transposase; Region: OrfB_IS605; pfam01385 1166018010151 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1166018010152 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 1166018010153 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018010154 Walker A/P-loop; other site 1166018010155 ATP binding site [chemical binding]; other site 1166018010156 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1166018010157 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; cd00081 1166018010158 thioester formation/cholesterol transfer; other site 1166018010159 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 1166018010160 non-specific DNA binding site [nucleotide binding]; other site 1166018010161 salt bridge; other site 1166018010162 sequence-specific DNA binding site [nucleotide binding]; other site 1166018010163 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 1166018010164 AAA ATPase domain; Region: AAA_16; pfam13191 1166018010165 AAA domain; Region: AAA_22; pfam13401 1166018010166 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 1166018010167 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018010168 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1166018010169 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1166018010170 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018010171 Walker A/P-loop; other site 1166018010172 ATP binding site [chemical binding]; other site 1166018010173 Q-loop/lid; other site 1166018010174 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1166018010175 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018010176 Walker A/P-loop; other site 1166018010177 ATP binding site [chemical binding]; other site 1166018010178 Q-loop/lid; other site 1166018010179 ABC transporter signature motif; other site 1166018010180 Walker B; other site 1166018010181 D-loop; other site 1166018010182 H-loop/switch region; other site 1166018010183 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 1166018010184 tape measure domain; Region: tape_meas_nterm; TIGR02675 1166018010185 Integral membrane protein TerC family; Region: TerC; pfam03741 1166018010186 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1166018010187 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1166018010188 putative metal binding site [ion binding]; other site 1166018010189 TROVE domain; Region: TROVE; pfam05731 1166018010190 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 1166018010191 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1166018010192 Phage capsid family; Region: Phage_capsid; pfam05065 1166018010193 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 1166018010194 Phage major tail protein 2; Region: Phage_tail_2; cl11463 1166018010195 tape measure domain; Region: tape_meas_nterm; TIGR02675 1166018010196 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018010197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018010198 Beta-lactamase; Region: Beta-lactamase; pfam00144 1166018010199 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018010200 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1166018010201 TPR motif; other site 1166018010202 Tetratricopeptide repeats; Region: TPR; smart00028 1166018010203 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018010204 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 1166018010205 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1166018010206 active site 1166018010207 substrate binding site [chemical binding]; other site 1166018010208 Mg2+ binding site [ion binding]; other site 1166018010209 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1166018010210 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 1166018010211 Walker A motif; other site 1166018010212 ATP binding site [chemical binding]; other site 1166018010213 Walker B motif; other site 1166018010214 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 1166018010215 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 1166018010216 non-specific DNA binding site [nucleotide binding]; other site 1166018010217 salt bridge; other site 1166018010218 sequence-specific DNA binding site [nucleotide binding]; other site 1166018010219 AntA/AntB antirepressor; Region: AntA; pfam08346 1166018010220 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 1166018010221 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018010222 Interdomain contacts; other site 1166018010223 Cytokine receptor motif; other site 1166018010224 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1166018010225 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1166018010226 Cadherin repeat-like domain; Region: CA_like; cl15786 1166018010227 Glycosyl hydrolase family 14; Region: Glyco_hydro_14; cl03185 1166018010228 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1166018010229 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1166018010230 active site 1166018010231 nucleophile elbow; other site 1166018010232 Predicted chitinase [General function prediction only]; Region: COG3179 1166018010233 Helix-turn-helix domain; Region: HTH_17; cl17695 1166018010234 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1166018010235 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1166018010236 active site 1166018010237 DNA binding site [nucleotide binding] 1166018010238 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1166018010239 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 1166018010240 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1166018010241 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1166018010242 HD domain; Region: HD_3; cl17350 1166018010243 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1166018010244 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1166018010245 cofactor binding site; other site 1166018010246 DNA binding site [nucleotide binding] 1166018010247 substrate interaction site [chemical binding]; other site 1166018010248 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1166018010249 DNA polymerase III subunit beta; Validated; Region: PRK05643 1166018010250 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 1166018010251 putative DNA binding surface [nucleotide binding]; other site 1166018010252 dimer interface [polypeptide binding]; other site 1166018010253 beta-clamp/clamp loader binding surface; other site 1166018010254 beta-clamp/translesion DNA polymerase binding surface; other site 1166018010255 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1166018010256 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1166018010257 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 1166018010258 IHF - DNA interface [nucleotide binding]; other site 1166018010259 IHF dimer interface [polypeptide binding]; other site 1166018010260 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1166018010261 active site 1166018010262 GIY-YIG motif/motif A; other site 1166018010263 catalytic site [active] 1166018010264 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 1166018010265 ParB-like nuclease domain; Region: ParBc; pfam02195 1166018010266 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1166018010267 sequence-specific DNA binding site [nucleotide binding]; other site 1166018010268 salt bridge; other site 1166018010269 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018010270 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1166018010271 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018010272 Predicted flavoprotein [General function prediction only]; Region: COG0431 1166018010273 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1166018010274 short chain dehydrogenase; Provisional; Region: PRK06197 1166018010275 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1166018010276 putative NAD(P) binding site [chemical binding]; other site 1166018010277 active site 1166018010278 Erythromycin esterase; Region: Erythro_esteras; cl17110 1166018010279 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 1166018010280 O-methyltransferase; Region: Methyltransf_2; pfam00891 1166018010281 cystathionine gamma-synthase; Provisional; Region: PRK07811 1166018010282 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 1166018010283 homodimer interface [polypeptide binding]; other site 1166018010284 substrate-cofactor binding pocket; other site 1166018010285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018010286 catalytic residue [active] 1166018010287 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 1166018010288 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1166018010289 Peptidase M60-like family; Region: M60-like; pfam13402 1166018010290 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018010291 SusD family; Region: SusD; pfam07980 1166018010292 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018010293 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018010294 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018010295 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 1166018010296 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018010297 YceI-like domain; Region: YceI; pfam04264 1166018010298 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1166018010299 MarR family; Region: MarR_2; cl17246 1166018010300 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1166018010301 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1166018010302 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018010303 Coenzyme A binding pocket [chemical binding]; other site 1166018010304 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1166018010305 prolyl-tRNA synthetase; Provisional; Region: PRK08661 1166018010306 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 1166018010307 dimer interface [polypeptide binding]; other site 1166018010308 motif 1; other site 1166018010309 active site 1166018010310 motif 2; other site 1166018010311 motif 3; other site 1166018010312 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 1166018010313 anticodon binding site; other site 1166018010314 zinc-binding site [ion binding]; other site 1166018010315 metal-dependent hydrolase; Provisional; Region: PRK13291 1166018010316 DinB superfamily; Region: DinB_2; pfam12867 1166018010317 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 1166018010318 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 1166018010319 active site 1166018010320 DivIVA protein; Region: DivIVA; pfam05103 1166018010321 DivIVA domain; Region: DivI1A_domain; TIGR03544 1166018010322 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1166018010323 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 1166018010324 structural tetrad; other site 1166018010325 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1166018010326 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 1166018010327 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1166018010328 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1166018010329 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018010330 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018010331 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1166018010332 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 1166018010333 PAS domain; Region: PAS_9; pfam13426 1166018010334 putative active site [active] 1166018010335 heme pocket [chemical binding]; other site 1166018010336 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 1166018010337 dimer interface [polypeptide binding]; other site 1166018010338 phosphorylation site [posttranslational modification] 1166018010339 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 1166018010340 ATP binding site [chemical binding]; other site 1166018010341 Mg2+ binding site [ion binding]; other site 1166018010342 G-X-G motif; other site 1166018010343 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018010344 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018010345 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 1166018010346 active site 1166018010347 phosphorylation site [posttranslational modification] 1166018010348 intermolecular recognition site; other site 1166018010349 dimerization interface [polypeptide binding]; other site 1166018010350 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 1166018010351 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1166018010352 putative active site [active] 1166018010353 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 1166018010354 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018010355 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018010356 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018010357 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018010358 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 1166018010359 TPR motif; other site 1166018010360 binding surface 1166018010361 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018010362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1166018010363 Histidine kinase; Region: HisKA_3; pfam07730 1166018010364 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 1166018010365 ATP binding site [chemical binding]; other site 1166018010366 Mg2+ binding site [ion binding]; other site 1166018010367 G-X-G motif; other site 1166018010368 PAP2 superfamily C-terminal; Region: PAP2_C; pfam14360 1166018010369 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1166018010370 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1166018010371 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 1166018010372 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1166018010373 active site 1166018010374 substrate binding site [chemical binding]; other site 1166018010375 Mg2+ binding site [ion binding]; other site 1166018010376 flavoprotein, HI0933 family; Region: TIGR00275 1166018010377 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1166018010378 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 1166018010379 sequence-specific DNA binding site [nucleotide binding]; other site 1166018010380 salt bridge; other site 1166018010381 Domain of unknown function (DUF955); Region: DUF955; cl01076 1166018010382 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1166018010383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1166018010384 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1166018010385 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1166018010386 dimer interface [polypeptide binding]; other site 1166018010387 motif 1; other site 1166018010388 active site 1166018010389 motif 2; other site 1166018010390 motif 3; other site 1166018010391 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 1166018010392 anticodon binding site; other site 1166018010393 Transglutaminase/protease-like homologues; Region: TGc; smart00460 1166018010394 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 1166018010395 trimer interface [polypeptide binding]; other site 1166018010396 putative Zn binding site [ion binding]; other site 1166018010397 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1166018010398 DNA photolyase; Region: DNA_photolyase; pfam00875 1166018010399 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 1166018010400 glucose-1-dehydrogenase; Provisional; Region: PRK08936 1166018010401 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 1166018010402 NAD binding site [chemical binding]; other site 1166018010403 homodimer interface [polypeptide binding]; other site 1166018010404 active site 1166018010405 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 1166018010406 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1166018010407 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018010408 NlpC/P60 family; Region: NLPC_P60; cl17555 1166018010409 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1166018010410 S1 domain; Region: S1_2; pfam13509 1166018010411 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1166018010412 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1166018010413 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1166018010414 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1166018010415 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1166018010416 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1166018010417 active site 1166018010418 PHP Thumb interface [polypeptide binding]; other site 1166018010419 metal binding site [ion binding]; metal-binding site 1166018010420 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 1166018010421 generic binding surface II; other site 1166018010422 generic binding surface I; other site 1166018010423 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018010424 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 1166018010425 active site 1166018010426 dimerization interface [polypeptide binding]; other site 1166018010427 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 1166018010428 dimerization interface [polypeptide binding]; other site 1166018010429 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018010430 Histidine kinase; Region: HisKA_2; pfam07568 1166018010431 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 1166018010432 ATP binding site [chemical binding]; other site 1166018010433 Mg2+ binding site [ion binding]; other site 1166018010434 G-X-G motif; other site 1166018010435 Protein of unknown function (DUF819); Region: DUF819; cl02317 1166018010436 Protein of unknown function (DUF819); Region: DUF819; cl02317 1166018010437 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018010438 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018010439 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 1166018010440 N-terminal plug; other site 1166018010441 ligand-binding site [chemical binding]; other site 1166018010442 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1166018010443 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1166018010444 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 1166018010445 homodimer interface [polypeptide binding]; other site 1166018010446 substrate-cofactor binding pocket; other site 1166018010447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018010448 catalytic residue [active] 1166018010449 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018010450 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018010451 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1166018010452 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 1166018010453 Active Sites [active] 1166018010454 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1166018010455 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 1166018010456 Active Sites [active] 1166018010457 PIN domain; Region: PIN_2; pfam10130 1166018010458 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 1166018010459 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1166018010460 CysD dimerization site [polypeptide binding]; other site 1166018010461 G1 box; other site 1166018010462 putative GEF interaction site [polypeptide binding]; other site 1166018010463 GTP/Mg2+ binding site [chemical binding]; other site 1166018010464 Switch I region; other site 1166018010465 G2 box; other site 1166018010466 G3 box; other site 1166018010467 Switch II region; other site 1166018010468 G4 box; other site 1166018010469 G5 box; other site 1166018010470 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 1166018010471 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 1166018010472 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1166018010473 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1166018010474 Ligand binding site; other site 1166018010475 metal-binding site 1166018010476 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_1; cd08352 1166018010477 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018010478 putative metal binding site [ion binding]; other site 1166018010479 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018010480 Beta-lactamase; Region: Beta-lactamase; pfam00144 1166018010481 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1166018010482 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 1166018010483 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1166018010484 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1166018010485 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 1166018010486 RNA binding site [nucleotide binding]; other site 1166018010487 active site 1166018010488 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1166018010489 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1166018010490 active site 1166018010491 Riboflavin kinase; Region: Flavokinase; pfam01687 1166018010492 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 1166018010493 active site 1166018010494 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1166018010495 Predicted membrane protein [Function unknown]; Region: COG2860 1166018010496 UPF0126 domain; Region: UPF0126; pfam03458 1166018010497 UPF0126 domain; Region: UPF0126; pfam03458 1166018010498 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase; Region: PLPDE_III_D-TA; cd06821 1166018010499 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1166018010500 dimer interface [polypeptide binding]; other site 1166018010501 active site 1166018010502 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1166018010503 substrate binding site [chemical binding]; other site 1166018010504 catalytic residue [active] 1166018010505 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1166018010506 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 1166018010507 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1166018010508 classical (c) SDRs; Region: SDR_c; cd05233 1166018010509 NAD(P) binding site [chemical binding]; other site 1166018010510 active site 1166018010511 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 1166018010512 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1166018010513 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018010514 catalytic residue [active] 1166018010515 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1166018010516 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1166018010517 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1166018010518 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1166018010519 ligand binding site [chemical binding]; other site 1166018010520 NAD binding site [chemical binding]; other site 1166018010521 tetramer interface [polypeptide binding]; other site 1166018010522 catalytic site [active] 1166018010523 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1166018010524 L-serine binding site [chemical binding]; other site 1166018010525 ACT domain interface; other site 1166018010526 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1166018010527 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1166018010528 NlpC/P60 family; Region: NLPC_P60; pfam00877 1166018010529 Rhomboid family; Region: Rhomboid; pfam01694 1166018010530 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 1166018010531 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 1166018010532 homodimer interface [polypeptide binding]; other site 1166018010533 substrate-cofactor binding pocket; other site 1166018010534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018010535 catalytic residue [active] 1166018010536 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1166018010537 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1166018010538 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 1166018010539 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018010540 catalytic residues [active] 1166018010541 Clp protease; Region: CLP_protease; pfam00574 1166018010542 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1166018010543 oligomer interface [polypeptide binding]; other site 1166018010544 active site residues [active] 1166018010545 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1166018010546 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 1166018010547 non-specific DNA binding site [nucleotide binding]; other site 1166018010548 salt bridge; other site 1166018010549 sequence-specific DNA binding site [nucleotide binding]; other site 1166018010550 trigger factor; Region: tig; TIGR00115 1166018010551 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1166018010552 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; pfam03663 1166018010553 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1166018010554 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1166018010555 Zn2+ binding site [ion binding]; other site 1166018010556 Mg2+ binding site [ion binding]; other site 1166018010557 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1166018010558 synthetase active site [active] 1166018010559 NTP binding site [chemical binding]; other site 1166018010560 metal binding site [ion binding]; metal-binding site 1166018010561 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 1166018010562 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1166018010563 ferric uptake regulator; Provisional; Region: fur; PRK09462 1166018010564 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1166018010565 metal binding site 2 [ion binding]; metal-binding site 1166018010566 putative DNA binding helix; other site 1166018010567 metal binding site 1 [ion binding]; metal-binding site 1166018010568 dimer interface [polypeptide binding]; other site 1166018010569 structural Zn2+ binding site [ion binding]; other site 1166018010570 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 1166018010571 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1166018010572 GDP-binding site [chemical binding]; other site 1166018010573 ACT binding site; other site 1166018010574 IMP binding site; other site 1166018010575 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1166018010576 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1166018010577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018010578 Protein of unknown function (DUF983); Region: DUF983; cl02211 1166018010579 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1166018010580 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 1166018010581 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1166018010582 active site 1166018010583 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1166018010584 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 1166018010585 inhibitor-cofactor binding pocket; inhibition site 1166018010586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018010587 catalytic residue [active] 1166018010588 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 1166018010589 binding surface 1166018010590 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1166018010591 TPR motif; other site 1166018010592 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1166018010593 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 1166018010594 ligand binding site [chemical binding]; other site 1166018010595 membrane protein insertase; Provisional; Region: PRK01318 1166018010596 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1166018010597 CTP synthetase; Validated; Region: pyrG; PRK05380 1166018010598 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 1166018010599 Catalytic site [active] 1166018010600 active site 1166018010601 UTP binding site [chemical binding]; other site 1166018010602 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1166018010603 active site 1166018010604 putative oxyanion hole; other site 1166018010605 catalytic triad [active] 1166018010606 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1166018010607 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1166018010608 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1166018010609 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1166018010610 Amidohydrolase; Region: Amidohydro_2; pfam04909 1166018010611 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 1166018010612 GTPase RsgA; Reviewed; Region: PRK00098 1166018010613 RNA binding site [nucleotide binding]; other site 1166018010614 homodimer interface [polypeptide binding]; other site 1166018010615 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1166018010616 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1166018010617 GTP/Mg2+ binding site [chemical binding]; other site 1166018010618 G4 box; other site 1166018010619 G5 box; other site 1166018010620 G1 box; other site 1166018010621 Switch I region; other site 1166018010622 G2 box; other site 1166018010623 G3 box; other site 1166018010624 Switch II region; other site 1166018010625 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 1166018010626 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1166018010627 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 1166018010628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1166018010629 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018010630 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018010631 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 1166018010632 DNA binding residues [nucleotide binding] 1166018010633 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1166018010634 FecR protein; Region: FecR; pfam04773 1166018010635 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018010636 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018010637 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018010638 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018010639 SusD family; Region: SusD; pfam07980 1166018010640 Protein of unknown function (DUF3823); Region: DUF3823; pfam12866 1166018010641 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018010642 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1166018010643 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018010644 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_14; cd13139 1166018010645 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1166018010646 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1166018010647 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1166018010648 HflX GTPase family; Region: HflX; cd01878 1166018010649 G1 box; other site 1166018010650 GTP/Mg2+ binding site [chemical binding]; other site 1166018010651 Switch I region; other site 1166018010652 G2 box; other site 1166018010653 G3 box; other site 1166018010654 Switch II region; other site 1166018010655 G4 box; other site 1166018010656 G5 box; other site 1166018010657 short chain dehydrogenase; Provisional; Region: PRK06523 1166018010658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018010659 NAD(P) binding site [chemical binding]; other site 1166018010660 active site 1166018010661 Predicted transcriptional regulators [Transcription]; Region: COG1733 1166018010662 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1166018010663 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1166018010664 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 1166018010665 catalytic loop [active] 1166018010666 iron binding site [ion binding]; other site 1166018010667 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1166018010668 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1166018010669 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1166018010670 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018010671 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018010672 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1166018010673 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1166018010674 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018010675 Histidine kinase; Region: HisKA_2; pfam07568 1166018010676 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 1166018010677 ATP binding site [chemical binding]; other site 1166018010678 Mg2+ binding site [ion binding]; other site 1166018010679 G-X-G motif; other site 1166018010680 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1166018010681 Protein of unknown function (DUF3804); Region: DUF3804; pfam12707 1166018010682 SnoaL-like domain; Region: SnoaL_3; pfam13474 1166018010683 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1166018010684 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1166018010685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018010686 Coenzyme A binding pocket [chemical binding]; other site 1166018010687 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 1166018010688 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 1166018010689 homotrimer interaction site [polypeptide binding]; other site 1166018010690 putative active site [active] 1166018010691 SnoaL-like domain; Region: SnoaL_3; pfam13474 1166018010692 SnoaL-like domain; Region: SnoaL_4; pfam13577 1166018010693 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018010694 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 1166018010695 active site 1166018010696 phosphorylation site [posttranslational modification] 1166018010697 intermolecular recognition site; other site 1166018010698 dimerization interface [polypeptide binding]; other site 1166018010699 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018010700 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018010701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018010702 short chain dehydrogenase; Provisional; Region: PRK08263 1166018010703 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1166018010704 NADP binding site [chemical binding]; other site 1166018010705 active site 1166018010706 steroid binding site; other site 1166018010707 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1166018010708 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1166018010709 active site 1166018010710 Zn binding site [ion binding]; other site 1166018010711 Two component regulator propeller; Region: Reg_prop; pfam07494 1166018010712 YceI-like domain; Region: YceI; pfam04264 1166018010713 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018010714 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018010715 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 1166018010716 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1166018010717 active site 1166018010718 catalytic tetrad [active] 1166018010719 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018010720 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018010721 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 1166018010722 short chain dehydrogenase; Provisional; Region: PRK12939 1166018010723 NADP binding site [chemical binding]; other site 1166018010724 substrate binding site [chemical binding]; other site 1166018010725 active site 1166018010726 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018010727 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 1166018010728 DNA binding residues [nucleotide binding] 1166018010729 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018010730 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1166018010731 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1166018010732 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1166018010733 putative NAD(P) binding site [chemical binding]; other site 1166018010734 catalytic Zn binding site [ion binding]; other site 1166018010735 structural Zn binding site [ion binding]; other site 1166018010736 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018010737 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 1166018010738 active site 1166018010739 phosphorylation site [posttranslational modification] 1166018010740 intermolecular recognition site; other site 1166018010741 dimerization interface [polypeptide binding]; other site 1166018010742 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1166018010743 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 1166018010744 dimer interface [polypeptide binding]; other site 1166018010745 phosphorylation site [posttranslational modification] 1166018010746 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 1166018010747 ATP binding site [chemical binding]; other site 1166018010748 Mg2+ binding site [ion binding]; other site 1166018010749 G-X-G motif; other site 1166018010750 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018010751 Cortexillin I, coiled coil; Region: Cortex-I_coil; pfam09304 1166018010752 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 1166018010753 dimer interface [polypeptide binding]; other site 1166018010754 phosphorylation site [posttranslational modification] 1166018010755 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 1166018010756 ATP binding site [chemical binding]; other site 1166018010757 Mg2+ binding site [ion binding]; other site 1166018010758 G-X-G motif; other site 1166018010759 HEAT repeats; Region: HEAT_2; pfam13646 1166018010760 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1166018010761 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 1166018010762 ligand binding site [chemical binding]; other site 1166018010763 flexible hinge region; other site 1166018010764 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 1166018010765 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1166018010766 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1166018010767 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018010768 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1166018010769 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 1166018010770 M6 family metalloprotease domain; Region: M6dom_TIGR03296 1166018010771 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1166018010772 Inner membrane protein CreD; Region: CreD; pfam06123 1166018010773 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 1166018010774 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 1166018010775 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1166018010776 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1166018010777 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1166018010778 active site 1166018010779 GxxExxY protein; Region: GxxExxY; TIGR04256 1166018010780 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1166018010781 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018010782 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018010783 DNA primase, catalytic core; Region: dnaG; TIGR01391 1166018010784 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1166018010785 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1166018010786 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 1166018010787 active site 1166018010788 metal binding site [ion binding]; metal-binding site 1166018010789 interdomain interaction site; other site 1166018010790 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1166018010791 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 1166018010792 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 1166018010793 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1166018010794 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1166018010795 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1166018010796 nucleotide binding site [chemical binding]; other site 1166018010797 NEF interaction site [polypeptide binding]; other site 1166018010798 SBD interface [polypeptide binding]; other site 1166018010799 Nuclease A inhibitor-like protein; Region: NuiA; pfam07924 1166018010800 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018010801 Interdomain contacts; other site 1166018010802 Cytokine receptor motif; other site 1166018010803 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018010804 Interdomain contacts; other site 1166018010805 Cytokine receptor motif; other site 1166018010806 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1166018010807 23S rRNA binding site [nucleotide binding]; other site 1166018010808 L21 binding site [polypeptide binding]; other site 1166018010809 L13 binding site [polypeptide binding]; other site 1166018010810 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1166018010811 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1166018010812 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1166018010813 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1166018010814 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1166018010815 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 1166018010816 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1166018010817 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 1166018010818 active site 1166018010819 dimer interface [polypeptide binding]; other site 1166018010820 motif 1; other site 1166018010821 motif 2; other site 1166018010822 motif 3; other site 1166018010823 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 1166018010824 anticodon binding site; other site 1166018010825 TPR repeat; Region: TPR_11; pfam13414 1166018010826 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 1166018010827 binding surface 1166018010828 TPR motif; other site 1166018010829 TPR repeat; Region: TPR_11; pfam13414 1166018010830 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 1166018010831 binding surface 1166018010832 TPR motif; other site 1166018010833 TPR repeat; Region: TPR_11; pfam13414 1166018010834 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 1166018010835 binding surface 1166018010836 TPR motif; other site 1166018010837 TPR repeat; Region: TPR_11; pfam13414 1166018010838 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1166018010839 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 1166018010840 S-adenosylmethionine binding site [chemical binding]; other site 1166018010841 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1166018010842 TRAM domain; Region: TRAM; cl01282 1166018010843 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 1166018010844 S-adenosylmethionine binding site [chemical binding]; other site 1166018010845 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018010846 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1166018010847 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1166018010848 UV-endonuclease UvdE; Region: UvdE; cl10036 1166018010849 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 1166018010850 putative ligand binding site [chemical binding]; other site 1166018010851 GTP-binding protein LepA; Provisional; Region: PRK05433 1166018010852 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1166018010853 G1 box; other site 1166018010854 putative GEF interaction site [polypeptide binding]; other site 1166018010855 GTP/Mg2+ binding site [chemical binding]; other site 1166018010856 Switch I region; other site 1166018010857 G2 box; other site 1166018010858 G3 box; other site 1166018010859 Switch II region; other site 1166018010860 G4 box; other site 1166018010861 G5 box; other site 1166018010862 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 1166018010863 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 1166018010864 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1166018010865 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018010866 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018010867 ligand binding site [chemical binding]; other site 1166018010868 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1166018010869 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 1166018010870 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018010871 catalytic residues [active] 1166018010872 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1166018010873 classical (c) SDRs; Region: SDR_c; cd05233 1166018010874 NAD(P) binding site [chemical binding]; other site 1166018010875 active site 1166018010876 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1166018010877 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 1166018010878 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1166018010879 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1166018010880 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018010881 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018010882 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1166018010883 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1166018010884 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 1166018010885 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018010886 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1166018010887 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018010888 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018010889 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018010890 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018010891 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018010892 SusD family; Region: SusD; pfam07980 1166018010893 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018010894 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018010895 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018010896 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018010897 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018010898 SusD family; Region: SusD; pfam07980 1166018010899 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1166018010900 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1166018010901 NAD binding site [chemical binding]; other site 1166018010902 substrate binding site [chemical binding]; other site 1166018010903 putative active site [active] 1166018010904 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018010905 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018010906 Predicted transcriptional regulators [Transcription]; Region: COG1733 1166018010907 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1166018010908 DoxX-like family; Region: DoxX_2; pfam13564 1166018010909 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 1166018010910 trimer interface [polypeptide binding]; other site 1166018010911 putative Zn binding site [ion binding]; other site 1166018010912 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018010913 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018010914 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1166018010915 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1166018010916 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1166018010917 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 1166018010918 Domain interface; other site 1166018010919 Active site tetrad [active] 1166018010920 Peptide binding site; other site 1166018010921 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1166018010922 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1166018010923 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1166018010924 putative NAD(P) binding site [chemical binding]; other site 1166018010925 Protein of unknown function (DUF2568); Region: DUF2568; pfam10823 1166018010926 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1166018010927 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 1166018010928 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1166018010929 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 1166018010930 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 1166018010931 substrate binding site [chemical binding]; other site 1166018010932 active site 1166018010933 Pirin-related protein [General function prediction only]; Region: COG1741 1166018010934 Pirin; Region: Pirin; pfam02678 1166018010935 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1166018010936 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1166018010937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018010938 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1166018010939 NAD(P) binding site [chemical binding]; other site 1166018010940 active site 1166018010941 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 1166018010942 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 1166018010943 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 1166018010944 mannonate dehydratase; Provisional; Region: PRK03906 1166018010945 mannonate dehydratase; Region: uxuA; TIGR00695 1166018010946 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1166018010947 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1166018010948 active site pocket [active] 1166018010949 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1166018010950 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1166018010951 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1166018010952 DNA binding site [nucleotide binding] 1166018010953 domain linker motif; other site 1166018010954 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1166018010955 dimerization interface [polypeptide binding]; other site 1166018010956 ligand binding site [chemical binding]; other site 1166018010957 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1166018010958 Rubredoxin; Region: Rubredoxin; pfam00301 1166018010959 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 1166018010960 iron binding site [ion binding]; other site 1166018010961 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 1166018010962 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1166018010963 [4Fe-4S] binding site [ion binding]; other site 1166018010964 molybdopterin cofactor binding site; other site 1166018010965 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 1166018010966 molybdopterin cofactor binding site; other site 1166018010967 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1166018010968 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1166018010969 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1166018010970 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 1166018010971 putative substrate translocation pore; other site 1166018010972 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1166018010973 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1166018010974 active site 1166018010975 SAM binding site [chemical binding]; other site 1166018010976 homodimer interface [polypeptide binding]; other site 1166018010977 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1166018010978 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1166018010979 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1166018010980 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1166018010981 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1166018010982 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1166018010983 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1166018010984 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1166018010985 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1166018010986 Histidine kinase; Region: HisKA_3; pfam07730 1166018010987 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 1166018010988 ATP binding site [chemical binding]; other site 1166018010989 Mg2+ binding site [ion binding]; other site 1166018010990 G-X-G motif; other site 1166018010991 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018010992 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 1166018010993 active site 1166018010994 phosphorylation site [posttranslational modification] 1166018010995 intermolecular recognition site; other site 1166018010996 dimerization interface [polypeptide binding]; other site 1166018010997 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 1166018010998 DNA binding residues [nucleotide binding] 1166018010999 dimerization interface [polypeptide binding]; other site 1166018011000 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 1166018011001 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018011002 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 1166018011003 active site 1166018011004 phosphorylation site [posttranslational modification] 1166018011005 intermolecular recognition site; other site 1166018011006 dimerization interface [polypeptide binding]; other site 1166018011007 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 1166018011008 DNA binding residues [nucleotide binding] 1166018011009 dimerization interface [polypeptide binding]; other site 1166018011010 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018011011 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 1166018011012 TPR motif; other site 1166018011013 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018011014 binding surface 1166018011015 hypothetical protein; Provisional; Region: PRK09609 1166018011016 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1166018011017 Histidine kinase; Region: HisKA_3; pfam07730 1166018011018 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 1166018011019 ATP binding site [chemical binding]; other site 1166018011020 Mg2+ binding site [ion binding]; other site 1166018011021 G-X-G motif; other site 1166018011022 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018011023 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018011024 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018011025 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018011026 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018011027 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018011028 SusD family; Region: SusD; pfam07980 1166018011029 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 1166018011030 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 1166018011031 putative metal binding site [ion binding]; other site 1166018011032 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 1166018011033 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018011034 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1166018011035 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018011036 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018011037 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018011038 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018011039 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 1166018011040 DNA binding residues [nucleotide binding] 1166018011041 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1166018011042 FecR protein; Region: FecR; pfam04773 1166018011043 Secretin and TonB N terminus short domain; Region: STN; pfam07660 1166018011044 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018011045 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018011046 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018011047 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018011048 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018011049 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018011050 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018011051 SusD family; Region: SusD; pfam07980 1166018011052 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018011053 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018011054 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018011055 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 1166018011056 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 1166018011057 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018011058 catalytic residues [active] 1166018011059 NIPSNAP; Region: NIPSNAP; pfam07978 1166018011060 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 1166018011061 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 1166018011062 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1166018011063 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1166018011064 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1166018011065 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 1166018011066 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1166018011067 Amidase; Region: Amidase; pfam01425 1166018011068 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1166018011069 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1166018011070 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1166018011071 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1166018011072 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 1166018011073 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 1166018011074 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1166018011075 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: GT1_like_1; cd04950 1166018011076 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018011077 putative homodimer interface [polypeptide binding]; other site 1166018011078 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1166018011079 SelR domain; Region: SelR; pfam01641 1166018011080 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1166018011081 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cd10981 1166018011082 Zn binding site [ion binding]; other site 1166018011083 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 1166018011084 ferrochelatase; Reviewed; Region: hemH; PRK00035 1166018011085 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 1166018011086 active site 1166018011087 C-terminal domain interface [polypeptide binding]; other site 1166018011088 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 1166018011089 active site 1166018011090 N-terminal domain interface [polypeptide binding]; other site 1166018011091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1166018011092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1166018011093 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 1166018011094 dimerization interface [polypeptide binding]; other site 1166018011095 aminotransferase AlaT; Validated; Region: PRK09265 1166018011096 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 1166018011097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018011098 homodimer interface [polypeptide binding]; other site 1166018011099 catalytic residue [active] 1166018011100 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 1166018011101 Walker A motif; other site 1166018011102 ATP binding site [chemical binding]; other site 1166018011103 Walker B motif; other site 1166018011104 arginine finger; other site 1166018011105 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 1166018011106 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1166018011107 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 1166018011108 putative substrate translocation pore; other site 1166018011109 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 1166018011110 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1166018011111 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1166018011112 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 1166018011113 binding surface 1166018011114 TPR motif; other site 1166018011115 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018011116 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018011117 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018011118 ligand binding site [chemical binding]; other site 1166018011119 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 1166018011120 conserved repeat domain; Region: B_ant_repeat; TIGR01451 1166018011121 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018011122 Cna protein B-type domain; Region: Cna_B; pfam05738 1166018011123 Cna protein B-type domain; Region: Cna_B; pfam05738 1166018011124 Cna protein B-type domain; Region: Cna_B; pfam05738 1166018011125 Cna protein B-type domain; Region: Cna_B; pfam05738 1166018011126 Cna protein B-type domain; Region: Cna_B; pfam05738 1166018011127 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018011128 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018011129 Cna protein B-type domain; Region: Cna_B; pfam05738 1166018011130 Cna protein B-type domain; Region: Cna_B; pfam05738 1166018011131 Cna protein B-type domain; Region: Cna_B; pfam05738 1166018011132 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018011133 Cna protein B-type domain; Region: Cna_B; pfam05738 1166018011134 conserved repeat domain; Region: B_ant_repeat; TIGR01451 1166018011135 Domain of unknown function DUF11; Region: DUF11; pfam01345 1166018011136 Translocon-associated protein beta (TRAPB); Region: TRAP_beta; pfam05753 1166018011137 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018011138 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1166018011139 Surface antigen; Region: Bac_surface_Ag; pfam01103 1166018011140 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1166018011141 cytidylate kinase; Provisional; Region: cmk; PRK00023 1166018011142 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 1166018011143 CMP-binding site; other site 1166018011144 The sites determining sugar specificity; other site 1166018011145 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1166018011146 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1166018011147 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1166018011148 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1166018011149 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1166018011150 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 1166018011151 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1166018011152 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1166018011153 Cysteine-rich domain; Region: CCG; pfam02754 1166018011154 Cysteine-rich domain; Region: CCG; pfam02754 1166018011155 Domain of unknown function (DUF718); Region: DUF718; pfam05336 1166018011156 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1166018011157 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 1166018011158 short chain dehydrogenase; Provisional; Region: PRK08628 1166018011159 classical (c) SDRs; Region: SDR_c; cd05233 1166018011160 NAD(P) binding site [chemical binding]; other site 1166018011161 active site 1166018011162 Amidohydrolase; Region: Amidohydro_2; pfam04909 1166018011163 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1166018011164 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 1166018011165 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1166018011166 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018011167 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1166018011168 Domain of unknown function DUF11; Region: DUF11; pfam01345 1166018011169 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1166018011170 Phage Tail Collar Domain; Region: Collar; pfam07484 1166018011171 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1166018011172 classical (c) SDRs; Region: SDR_c; cd05233 1166018011173 NAD(P) binding site [chemical binding]; other site 1166018011174 active site 1166018011175 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1166018011176 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1166018011177 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1166018011178 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1166018011179 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1166018011180 active site 1166018011181 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1166018011182 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018011183 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018011184 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 1166018011185 DNA binding residues [nucleotide binding] 1166018011186 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1166018011187 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 1166018011188 Walker A motif; other site 1166018011189 ATP binding site [chemical binding]; other site 1166018011190 Walker B motif; other site 1166018011191 recombination factor protein RarA; Provisional; Region: PRK14700 1166018011192 arginine finger; other site 1166018011193 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1166018011194 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1166018011195 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1166018011196 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018011197 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 1166018011198 active site 1166018011199 phosphorylation site [posttranslational modification] 1166018011200 intermolecular recognition site; other site 1166018011201 dimerization interface [polypeptide binding]; other site 1166018011202 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1166018011203 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1166018011204 argininosuccinate synthase; Provisional; Region: PRK13820 1166018011205 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 1166018011206 Ligand Binding Site [chemical binding]; other site 1166018011207 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1166018011208 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 1166018011209 active site 1166018011210 catalytic triad [active] 1166018011211 oxyanion hole [active] 1166018011212 sphingolipid delta-4 desaturase; Region: PLN02579 1166018011213 Sphingolipid Delta4-desaturase (DES); Region: Lipid_DES; pfam08557 1166018011214 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 1166018011215 putative di-iron ligands [ion binding]; other site 1166018011216 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018011217 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1166018011218 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1166018011219 putative acyl-acceptor binding pocket; other site 1166018011220 Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the...; Region: KAZAL_FS; cd00104 1166018011221 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1166018011222 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1166018011223 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1166018011224 mce related protein; Region: MCE; pfam02470 1166018011225 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1166018011226 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 1166018011227 active site 1166018011228 metal binding site [ion binding]; metal-binding site 1166018011229 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1166018011230 conserved repeat domain; Region: B_ant_repeat; TIGR01451 1166018011231 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1166018011232 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1166018011233 Cation efflux family; Region: Cation_efflux; pfam01545 1166018011234 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1166018011235 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1166018011236 putative di-iron ligands [ion binding]; other site 1166018011237 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1166018011238 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1166018011239 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018011240 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1166018011241 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1166018011242 inhibitor site; inhibition site 1166018011243 active site 1166018011244 dimer interface [polypeptide binding]; other site 1166018011245 catalytic residue [active] 1166018011246 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1166018011247 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1166018011248 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1166018011249 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1166018011250 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1166018011251 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1166018011252 dimer interface [polypeptide binding]; other site 1166018011253 NADP binding site [chemical binding]; other site 1166018011254 catalytic residues [active] 1166018011255 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 1166018011256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1166018011257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1166018011258 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 1166018011259 L-type amino acid transporter; Region: 2A0308; TIGR00911 1166018011260 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1166018011261 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018011262 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018011263 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1166018011264 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018011265 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018011266 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018011267 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018011268 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 1166018011269 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018011270 Protein of unknown function (DUF808); Region: DUF808; cl01002 1166018011271 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1166018011272 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1166018011273 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1166018011274 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 1166018011275 active site 1166018011276 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1166018011277 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1166018011278 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1166018011279 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1166018011280 acyl-activating enzyme (AAE) consensus motif; other site 1166018011281 putative AMP binding site [chemical binding]; other site 1166018011282 putative active site [active] 1166018011283 putative CoA binding site [chemical binding]; other site 1166018011284 CsbD-like; Region: CsbD; cl17424 1166018011285 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...; Region: RaiA; cd00552 1166018011286 30S subunit binding site; other site 1166018011287 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1166018011288 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1166018011289 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1166018011290 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1166018011291 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1166018011292 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1166018011293 ATP binding site [chemical binding]; other site 1166018011294 putative Mg++ binding site [ion binding]; other site 1166018011295 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 1166018011296 nucleotide binding region [chemical binding]; other site 1166018011297 ATP-binding site [chemical binding]; other site 1166018011298 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1166018011299 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 1166018011300 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018011301 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1166018011302 lipoyl synthase; Provisional; Region: PRK05481 1166018011303 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 1166018011304 FeS/SAM binding site; other site 1166018011305 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1166018011306 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1166018011307 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1166018011308 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1166018011309 NAD(P) binding site [chemical binding]; other site 1166018011310 catalytic residues [active] 1166018011311 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1166018011312 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018011313 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018011314 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1166018011315 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1166018011316 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018011317 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018011318 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1166018011319 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 1166018011320 active site 1166018011321 dimer interface [polypeptide binding]; other site 1166018011322 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 1166018011323 dimer interface [polypeptide binding]; other site 1166018011324 active site 1166018011325 polynucleotide kinase; Provisional; Region: pseT; PHA02530 1166018011326 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1166018011327 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1166018011328 active site 1166018011329 motif I; other site 1166018011330 motif II; other site 1166018011331 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1166018011332 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1166018011333 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1166018011334 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1166018011335 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 1166018011336 putative dimer interface [polypeptide binding]; other site 1166018011337 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018011338 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018011339 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 1166018011340 DNA binding residues [nucleotide binding] 1166018011341 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018011342 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018011343 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018011344 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018011345 SusD family; Region: SusD; pfam07980 1166018011346 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1166018011347 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 1166018011348 putative DNA binding site [nucleotide binding]; other site 1166018011349 putative Zn2+ binding site [ion binding]; other site 1166018011350 AsnC family; Region: AsnC_trans_reg; pfam01037 1166018011351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018011352 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1166018011353 NAD(P) binding site [chemical binding]; other site 1166018011354 active site 1166018011355 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1166018011356 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1166018011357 substrate-cofactor binding pocket; other site 1166018011358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018011359 catalytic residue [active] 1166018011360 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1166018011361 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1166018011362 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018011363 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018011364 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018011365 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1166018011366 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 1166018011367 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1166018011368 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1166018011369 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1166018011370 putative dimer interface [polypeptide binding]; other site 1166018011371 putative anticodon binding site; other site 1166018011372 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1166018011373 homodimer interface [polypeptide binding]; other site 1166018011374 motif 1; other site 1166018011375 motif 2; other site 1166018011376 active site 1166018011377 motif 3; other site 1166018011378 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 1166018011379 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 1166018011380 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1166018011381 active site 1166018011382 catalytic tetrad [active] 1166018011383 prephenate dehydrogenase; Validated; Region: PRK08507 1166018011384 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 1166018011385 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 1166018011386 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 1166018011387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018011388 homodimer interface [polypeptide binding]; other site 1166018011389 catalytic residue [active] 1166018011390 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1166018011391 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1166018011392 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471 1166018011393 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1166018011394 ATP synthase A chain; Region: ATP-synt_A; cl00413 1166018011395 ATP synthase A chain; Region: ATP-synt_A; cl00413 1166018011396 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1166018011397 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1166018011398 substrate binding pocket [chemical binding]; other site 1166018011399 chain length determination region; other site 1166018011400 substrate-Mg2+ binding site; other site 1166018011401 catalytic residues [active] 1166018011402 aspartate-rich region 1; other site 1166018011403 active site lid residues [active] 1166018011404 aspartate-rich region 2; other site 1166018011405 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1166018011406 active site 1166018011407 nucleophile elbow; other site 1166018011408 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018011409 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018011410 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018011411 selenophosphate synthetase; Provisional; Region: PRK00943 1166018011412 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 1166018011413 dimerization interface [polypeptide binding]; other site 1166018011414 putative ATP binding site [chemical binding]; other site 1166018011415 acyl-CoA esterase; Provisional; Region: PRK10673 1166018011416 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1166018011417 short chain dehydrogenase; Provisional; Region: PRK07035 1166018011418 classical (c) SDRs; Region: SDR_c; cd05233 1166018011419 NAD(P) binding site [chemical binding]; other site 1166018011420 active site 1166018011421 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 1166018011422 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1166018011423 dimer interface [polypeptide binding]; other site 1166018011424 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1166018011425 Na binding site [ion binding]; other site 1166018011426 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 1166018011427 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 1166018011428 oligomeric interface; other site 1166018011429 putative active site [active] 1166018011430 homodimer interface [polypeptide binding]; other site 1166018011431 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018011432 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1166018011433 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1166018011434 active site 1166018011435 interdomain interaction site; other site 1166018011436 putative metal-binding site [ion binding]; other site 1166018011437 nucleotide binding site [chemical binding]; other site 1166018011438 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 1166018011439 domain I; other site 1166018011440 DNA binding groove [nucleotide binding] 1166018011441 phosphate binding site [ion binding]; other site 1166018011442 domain II; other site 1166018011443 domain III; other site 1166018011444 nucleotide binding site [chemical binding]; other site 1166018011445 catalytic site [active] 1166018011446 domain IV; other site 1166018011447 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1166018011448 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1166018011449 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1166018011450 NAD-dependent deacetylase; Provisional; Region: PRK00481 1166018011451 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 1166018011452 NAD+ binding site [chemical binding]; other site 1166018011453 substrate binding site [chemical binding]; other site 1166018011454 Zn binding site [ion binding]; other site 1166018011455 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1166018011456 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1166018011457 minor groove reading motif; other site 1166018011458 helix-hairpin-helix signature motif; other site 1166018011459 substrate binding pocket [chemical binding]; other site 1166018011460 active site 1166018011461 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1166018011462 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1166018011463 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1166018011464 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1166018011465 ligand binding site [chemical binding]; other site 1166018011466 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018011467 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018011468 ligand binding site [chemical binding]; other site 1166018011469 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1166018011470 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1166018011471 putative active site [active] 1166018011472 putative metal binding site [ion binding]; other site 1166018011473 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018011474 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018011475 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018011476 short chain dehydrogenase; Provisional; Region: PRK07677 1166018011477 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 1166018011478 NAD(P) binding site [chemical binding]; other site 1166018011479 substrate binding site [chemical binding]; other site 1166018011480 homotetramer interface [polypeptide binding]; other site 1166018011481 active site 1166018011482 homodimer interface [polypeptide binding]; other site 1166018011483 enoyl-CoA hydratase; Provisional; Region: PRK06142 1166018011484 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 1166018011485 substrate binding site [chemical binding]; other site 1166018011486 oxyanion hole (OAH) forming residues; other site 1166018011487 trimer interface [polypeptide binding]; other site 1166018011488 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 1166018011489 AMP nucleosidase; Provisional; Region: PRK07115 1166018011490 TPR repeat; Region: TPR_11; pfam13414 1166018011491 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 1166018011492 binding surface 1166018011493 TPR motif; other site 1166018011494 TPR repeat; Region: TPR_11; pfam13414 1166018011495 TPR repeat; Region: TPR_11; pfam13414 1166018011496 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 1166018011497 binding surface 1166018011498 TPR motif; other site 1166018011499 TPR repeat; Region: TPR_11; pfam13414 1166018011500 TPR repeat; Region: TPR_11; pfam13414 1166018011501 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 1166018011502 TPR motif; other site 1166018011503 TPR repeat; Region: TPR_11; pfam13414 1166018011504 binding surface 1166018011505 TPR repeat; Region: TPR_11; pfam13414 1166018011506 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 1166018011507 binding surface 1166018011508 TPR motif; other site 1166018011509 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1166018011510 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 1166018011511 putative dimer interface [polypeptide binding]; other site 1166018011512 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1166018011513 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1166018011514 active site 1166018011515 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 1166018011516 putative active site [active] 1166018011517 catalytic residue [active] 1166018011518 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1166018011519 active site 1166018011520 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1166018011521 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1166018011522 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1166018011523 ABC transporter; Region: ABC_tran_2; pfam12848 1166018011524 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1166018011525 RloB-like protein; Region: RloB; pfam13707 1166018011526 AAA domain; Region: AAA_21; pfam13304 1166018011527 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018011528 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018011529 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018011530 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 1166018011531 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1166018011532 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1166018011533 Probable Catalytic site; other site 1166018011534 metal-binding site 1166018011535 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018011536 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 1166018011537 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1166018011538 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1166018011539 oligomer interface [polypeptide binding]; other site 1166018011540 active site 1166018011541 metal binding site [ion binding]; metal-binding site 1166018011542 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 1166018011543 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 1166018011544 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1166018011545 AAA domain; Region: AAA_12; pfam13087 1166018011546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 1166018011547 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1166018011548 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1166018011549 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1166018011550 active site 1166018011551 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018011552 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018011553 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018011554 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018011555 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1166018011556 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018011557 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1166018011558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018011559 NAD(P) binding site [chemical binding]; other site 1166018011560 active site 1166018011561 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1166018011562 active site 1166018011563 DNA binding site [nucleotide binding] 1166018011564 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1166018011565 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1166018011566 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 1166018011567 dimer interface [polypeptide binding]; other site 1166018011568 phosphorylation site [posttranslational modification] 1166018011569 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 1166018011570 ATP binding site [chemical binding]; other site 1166018011571 Mg2+ binding site [ion binding]; other site 1166018011572 G-X-G motif; other site 1166018011573 muropeptide transporter; Validated; Region: ampG; cl17669 1166018011574 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1166018011575 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018011576 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1166018011577 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1166018011578 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018011579 Pectinacetylesterase; Region: PAE; pfam03283 1166018011580 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018011581 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018011582 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018011583 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018011584 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018011585 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1166018011586 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1166018011587 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1166018011588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018011589 Cytochrome c; Region: Cytochrom_C; pfam00034 1166018011590 Predicted acyl esterases [General function prediction only]; Region: COG2936 1166018011591 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1166018011592 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018011593 Interdomain contacts; other site 1166018011594 Cytokine receptor motif; other site 1166018011595 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018011596 Interdomain contacts; other site 1166018011597 Cytokine receptor motif; other site 1166018011598 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018011599 Interdomain contacts; other site 1166018011600 Cytokine receptor motif; other site 1166018011601 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018011602 Cytokine receptor motif; other site 1166018011603 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018011604 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018011605 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1166018011606 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018011607 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 1166018011608 DNA binding residues [nucleotide binding] 1166018011609 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1166018011610 FecR protein; Region: FecR; pfam04773 1166018011611 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018011612 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018011613 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018011614 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018011615 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018011616 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018011617 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1166018011618 active site 1166018011619 oxyanion hole [active] 1166018011620 catalytic triad [active] 1166018011621 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 1166018011622 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; cl00062 1166018011623 phosphopeptide binding site; other site 1166018011624 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 1166018011625 tetramerization interface [polypeptide binding]; other site 1166018011626 catalytic residues [active] 1166018011627 substrate binding pocket [chemical binding]; other site 1166018011628 inhibitor binding sites; inhibition site 1166018011629 NADP(H) binding site [chemical binding]; other site 1166018011630 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 1166018011631 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1166018011632 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1166018011633 active site 1166018011634 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 1166018011635 putative substrate translocation pore; other site 1166018011636 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018011637 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 1166018011638 Zn binding site [ion binding]; other site 1166018011639 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 1166018011640 PIF1-like helicase; Region: PIF1; pfam05970 1166018011641 Walker A motif; other site 1166018011642 ATP binding site [chemical binding]; other site 1166018011643 Walker B motif; other site 1166018011644 Family description; Region: UvrD_C_2; pfam13538 1166018011645 HRDC domain; Region: HRDC; pfam00570 1166018011646 TPR repeat; Region: TPR_11; pfam13414 1166018011647 TPR repeat; Region: TPR_11; pfam13414 1166018011648 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 1166018011649 binding surface 1166018011650 TPR motif; other site 1166018011651 TPR repeat; Region: TPR_11; pfam13414 1166018011652 TPR repeat; Region: TPR_11; pfam13414 1166018011653 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 1166018011654 binding surface 1166018011655 TPR repeat; Region: TPR_11; pfam13414 1166018011656 TPR motif; other site 1166018011657 TPR repeat; Region: TPR_11; pfam13414 1166018011658 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 1166018011659 TPR motif; other site 1166018011660 binding surface 1166018011661 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1166018011662 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1166018011663 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 1166018011664 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 1166018011665 dihydroorotase; Validated; Region: pyrC; PRK09357 1166018011666 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 1166018011667 active site 1166018011668 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 1166018011669 lipoyl attachment site [posttranslational modification]; other site 1166018011670 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1166018011671 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1166018011672 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1166018011673 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 1166018011674 ATP binding site [chemical binding]; other site 1166018011675 putative Mg++ binding site [ion binding]; other site 1166018011676 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 1166018011677 nucleotide binding region [chemical binding]; other site 1166018011678 ATP-binding site [chemical binding]; other site 1166018011679 Uncharacterized protein conserved in bacteria (DUF2064); Region: DUF2064; cl17492 1166018011680 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018011681 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018011682 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018011683 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018011684 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1166018011685 hypothetical protein; Provisional; Region: PRK11622 1166018011686 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 1166018011687 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 1166018011688 ABC-ATPase subunit interface; other site 1166018011689 putative PBP binding loops; other site 1166018011690 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1166018011691 conserved cys residue [active] 1166018011692 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1166018011693 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1166018011694 Walker A/P-loop; other site 1166018011695 ATP binding site [chemical binding]; other site 1166018011696 Q-loop/lid; other site 1166018011697 ABC transporter signature motif; other site 1166018011698 Walker B; other site 1166018011699 D-loop; other site 1166018011700 H-loop/switch region; other site 1166018011701 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1166018011702 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 1166018011703 FeS/SAM binding site; other site 1166018011704 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1166018011705 MoxR-like ATPases [General function prediction only]; Region: COG0714 1166018011706 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; cl17189 1166018011707 Walker A motif; other site 1166018011708 ATP binding site [chemical binding]; other site 1166018011709 Walker B motif; other site 1166018011710 arginine finger; other site 1166018011711 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1166018011712 Protein of unknown function DUF58; Region: DUF58; pfam01882 1166018011713 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1166018011714 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 1166018011715 4-alpha-glucanotransferase; Provisional; Region: PRK14508 1166018011716 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 1166018011717 DinB superfamily; Region: DinB_2; pfam12867 1166018011718 Fasciclin domain; Region: Fasciclin; pfam02469 1166018011719 Fasciclin domain; Region: Fasciclin; pfam02469 1166018011720 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1166018011721 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 1166018011722 catalytic residue [active] 1166018011723 putative FPP diphosphate binding site; other site 1166018011724 putative FPP binding hydrophobic cleft; other site 1166018011725 dimer interface [polypeptide binding]; other site 1166018011726 putative IPP diphosphate binding site; other site 1166018011727 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1166018011728 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1166018011729 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1166018011730 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1166018011731 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1166018011732 Surface antigen; Region: Bac_surface_Ag; pfam01103 1166018011733 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1166018011734 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1166018011735 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1166018011736 dimer interface [polypeptide binding]; other site 1166018011737 catalytic triad [active] 1166018011738 FecR protein; Region: FecR; pfam04773 1166018011739 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1166018011740 classical (c) SDRs; Region: SDR_c; cd05233 1166018011741 NAD(P) binding site [chemical binding]; other site 1166018011742 active site 1166018011743 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 1166018011744 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 1166018011745 homodimer interface [polypeptide binding]; other site 1166018011746 metal binding site [ion binding]; metal-binding site 1166018011747 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018011748 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 1166018011749 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...; Region: LT_GEWL; cd00254 1166018011750 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1166018011751 catalytic residue [active] 1166018011752 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018011753 Protein of unknown function (DUF1509); Region: DUF1509; pfam07420 1166018011754 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018011755 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1166018011756 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1166018011757 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1166018011758 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 1166018011759 S-adenosylmethionine binding site [chemical binding]; other site 1166018011760 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 1166018011761 active site 1166018011762 multimer interface [polypeptide binding]; other site 1166018011763 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1166018011764 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1166018011765 minor groove reading motif; other site 1166018011766 helix-hairpin-helix signature motif; other site 1166018011767 substrate binding pocket [chemical binding]; other site 1166018011768 active site 1166018011769 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1166018011770 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018011771 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 1166018011772 active site 1166018011773 phosphorylation site [posttranslational modification] 1166018011774 intermolecular recognition site; other site 1166018011775 dimerization interface [polypeptide binding]; other site 1166018011776 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018011777 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 1166018011778 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018011779 binding surface 1166018011780 TPR motif; other site 1166018011781 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018011782 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 1166018011783 binding surface 1166018011784 TPR motif; other site 1166018011785 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018011786 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018011787 Histidine kinase; Region: HisKA_2; pfam07568 1166018011788 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 1166018011789 ATP binding site [chemical binding]; other site 1166018011790 Mg2+ binding site [ion binding]; other site 1166018011791 G-X-G motif; other site 1166018011792 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 1166018011793 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1166018011794 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1166018011795 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018011796 Beta-lactamase; Region: Beta-lactamase; pfam00144 1166018011797 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1166018011798 active site 1166018011799 catalytic residues [active] 1166018011800 malate dehydrogenase; Reviewed; Region: PRK06223 1166018011801 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1166018011802 NAD(P) binding site [chemical binding]; other site 1166018011803 dimer interface [polypeptide binding]; other site 1166018011804 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1166018011805 substrate binding site [chemical binding]; other site 1166018011806 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1166018011807 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 1166018011808 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1166018011809 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1166018011810 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 1166018011811 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1166018011812 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1166018011813 putative anti-sigmaE protein; Provisional; Region: PRK13920 1166018011814 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018011815 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 1166018011816 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1166018011817 alpha subunit interface [polypeptide binding]; other site 1166018011818 TPP binding site [chemical binding]; other site 1166018011819 heterodimer interface [polypeptide binding]; other site 1166018011820 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1166018011821 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1166018011822 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1166018011823 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1166018011824 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 1166018011825 active site residue [active] 1166018011826 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 1166018011827 active site residue [active] 1166018011828 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1166018011829 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1166018011830 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1166018011831 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1166018011832 NAD binding site [chemical binding]; other site 1166018011833 active site 1166018011834 MG2 domain; Region: A2M_N; pfam01835 1166018011835 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018011836 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1166018011837 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1166018011838 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1166018011839 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1166018011840 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1166018011841 Ligand binding site; other site 1166018011842 Putative Catalytic site; other site 1166018011843 DXD motif; other site 1166018011844 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 1166018011845 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018011846 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 1166018011847 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 1166018011848 malonyl-CoA binding site [chemical binding]; other site 1166018011849 dimer interface [polypeptide binding]; other site 1166018011850 active site 1166018011851 product binding site; other site 1166018011852 UbiA prenyltransferase family; Region: UbiA; pfam01040 1166018011853 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1166018011854 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 1166018011855 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018011856 catalytic residue [active] 1166018011857 (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 1166018011858 dimer interaction site [polypeptide binding]; other site 1166018011859 substrate-binding tunnel; other site 1166018011860 active site 1166018011861 catalytic site [active] 1166018011862 substrate binding site [chemical binding]; other site 1166018011863 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1166018011864 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1166018011865 active site 1166018011866 metal binding site [ion binding]; metal-binding site 1166018011867 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1166018011868 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1166018011869 nucleotide binding site [chemical binding]; other site 1166018011870 hypothetical protein; Provisional; Region: PRK06194 1166018011871 classical (c) SDRs; Region: SDR_c; cd05233 1166018011872 NAD(P) binding site [chemical binding]; other site 1166018011873 active site 1166018011874 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1166018011875 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1166018011876 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1166018011877 active site 1166018011878 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1166018011879 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1166018011880 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1166018011881 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 1166018011882 S-adenosylmethionine binding site [chemical binding]; other site 1166018011883 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1166018011884 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 1166018011885 active site 1166018011886 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018011887 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 1166018011888 active site 1166018011889 phosphorylation site [posttranslational modification] 1166018011890 intermolecular recognition site; other site 1166018011891 dimerization interface [polypeptide binding]; other site 1166018011892 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018011893 Histidine kinase; Region: His_kinase; pfam06580 1166018011894 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1166018011895 Histidine kinase; Region: His_kinase; pfam06580 1166018011896 Cytochrome c; Region: Cytochrom_C; pfam00034 1166018011897 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018011898 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_16; cd07263 1166018011899 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018011900 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018011901 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018011902 RibD C-terminal domain; Region: RibD_C; cl17279 1166018011903 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1166018011904 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1166018011905 Sulfatase; Region: Sulfatase; pfam00884 1166018011906 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 1166018011907 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1166018011908 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1166018011909 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 1166018011910 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1166018011911 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018011912 YCII-related domain; Region: YCII; cl00999 1166018011913 DoxX-like family; Region: DoxX_2; pfam13564 1166018011914 phosphoenolpyruvate synthase; Validated; Region: PRK06241 1166018011915 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1166018011916 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1166018011917 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1166018011918 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1166018011919 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1166018011920 putative NAD(P) binding site [chemical binding]; other site 1166018011921 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018011922 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018011923 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1166018011924 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1166018011925 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1166018011926 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1166018011927 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1166018011928 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1166018011929 substrate binding pocket [chemical binding]; other site 1166018011930 catalytic triad [active] 1166018011931 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1166018011932 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018011933 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018011934 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018011935 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018011936 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018011937 SusD family; Region: SusD; pfam07980 1166018011938 Protein of unknown function (DUF3823); Region: DUF3823; pfam12866 1166018011939 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 1166018011940 substrate binding site [chemical binding]; other site 1166018011941 active site 1166018011942 oxidoreductase; Provisional; Region: PRK06128 1166018011943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018011944 NAD(P) binding site [chemical binding]; other site 1166018011945 active site 1166018011946 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 1166018011947 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 1166018011948 short chain dehydrogenase; Provisional; Region: PRK06180 1166018011949 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1166018011950 NADP binding site [chemical binding]; other site 1166018011951 active site 1166018011952 steroid binding site; other site 1166018011953 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1166018011954 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018011955 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018011956 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 1166018011957 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1166018011958 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1166018011959 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1166018011960 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1166018011961 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1166018011962 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1166018011963 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018011964 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1166018011965 Trehalose utilisation; Region: ThuA; pfam06283 1166018011966 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018011967 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1166018011968 Cytochrome c; Region: Cytochrom_C; cl11414 1166018011969 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 1166018011970 metal binding site [ion binding]; metal-binding site 1166018011971 ligand binding site [chemical binding]; other site 1166018011972 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1166018011973 nudix motif; other site 1166018011974 Helix-turn-helix domain; Region: HTH_18; pfam12833 1166018011975 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018011976 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1166018011977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018011978 NAD(P) binding site [chemical binding]; other site 1166018011979 active site 1166018011980 Cupin domain; Region: Cupin_2; pfam07883 1166018011981 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 1166018011982 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1166018011983 active site 1166018011984 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 1166018011985 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1166018011986 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1166018011987 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 1166018011988 S-adenosylmethionine binding site [chemical binding]; other site 1166018011989 MerC mercury resistance protein; Region: MerC; pfam03203 1166018011990 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1166018011991 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1166018011992 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1166018011993 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1166018011994 Domain of unknown function (DUF1793); Region: DUF1793; pfam08760 1166018011995 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 1166018011996 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1166018011997 Putative esterase; Region: Esterase; pfam00756 1166018011998 S-formylglutathione hydrolase; Region: PLN02442 1166018011999 PAS domain; Region: PAS_9; pfam13426 1166018012000 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1166018012001 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1166018012002 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1166018012003 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1166018012004 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 1166018012005 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1166018012006 putative active site [active] 1166018012007 heme pocket [chemical binding]; other site 1166018012008 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 1166018012009 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1166018012010 putative active site [active] 1166018012011 heme pocket [chemical binding]; other site 1166018012012 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 1166018012013 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1166018012014 putative active site [active] 1166018012015 heme pocket [chemical binding]; other site 1166018012016 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 1166018012017 putative active site [active] 1166018012018 heme pocket [chemical binding]; other site 1166018012019 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018012020 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 1166018012021 dimer interface [polypeptide binding]; other site 1166018012022 phosphorylation site [posttranslational modification] 1166018012023 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 1166018012024 ATP binding site [chemical binding]; other site 1166018012025 Mg2+ binding site [ion binding]; other site 1166018012026 G-X-G motif; other site 1166018012027 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018012028 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 1166018012029 active site 1166018012030 phosphorylation site [posttranslational modification] 1166018012031 intermolecular recognition site; other site 1166018012032 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018012033 dimerization interface [polypeptide binding]; other site 1166018012034 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 1166018012035 dimer interface [polypeptide binding]; other site 1166018012036 phosphorylation site [posttranslational modification] 1166018012037 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 1166018012038 ATP binding site [chemical binding]; other site 1166018012039 Mg2+ binding site [ion binding]; other site 1166018012040 G-X-G motif; other site 1166018012041 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018012042 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018012043 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018012044 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1166018012045 HEAT repeats; Region: HEAT_2; pfam13646 1166018012046 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1166018012047 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018012048 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 1166018012049 DNA binding residues [nucleotide binding] 1166018012050 RES domain; Region: RES; cl02411 1166018012051 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 1166018012052 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1166018012053 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1166018012054 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1166018012055 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1166018012056 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 1166018012057 dimer interface [polypeptide binding]; other site 1166018012058 conserved gate region; other site 1166018012059 putative PBP binding loops; other site 1166018012060 ABC-ATPase subunit interface; other site 1166018012061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018012062 Walker A/P-loop; other site 1166018012063 ATP binding site [chemical binding]; other site 1166018012064 ABC transporter; Region: ABC_tran; pfam00005 1166018012065 Q-loop/lid; other site 1166018012066 ABC transporter signature motif; other site 1166018012067 Walker B; other site 1166018012068 D-loop; other site 1166018012069 H-loop/switch region; other site 1166018012070 short chain dehydrogenase; Provisional; Region: PRK06197 1166018012071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018012072 NAD(P) binding site [chemical binding]; other site 1166018012073 active site 1166018012074 classical (c) SDRs; Region: SDR_c; cd05233 1166018012075 NAD(P) binding site [chemical binding]; other site 1166018012076 active site 1166018012077 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1166018012078 active site 1166018012079 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018012080 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1166018012081 active site 1166018012082 EVE domain; Region: EVE; cl00728 1166018012083 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1166018012084 MarR family; Region: MarR; pfam01047 1166018012085 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 1166018012086 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018012087 Coenzyme A binding pocket [chemical binding]; other site 1166018012088 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1166018012089 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1166018012090 GH3 auxin-responsive promoter; Region: GH3; pfam03321 1166018012091 SnoaL-like domain; Region: SnoaL_2; pfam12680 1166018012092 Histidine kinase; Region: His_kinase; pfam06580 1166018012093 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018012094 Histidine kinase; Region: His_kinase; pfam06580 1166018012095 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 1166018012096 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 1166018012097 active site 1166018012098 Glyco_18 domain; Region: Glyco_18; smart00636 1166018012099 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 1166018012100 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1166018012101 Histidine kinase; Region: His_kinase; pfam06580 1166018012102 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1166018012103 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1166018012104 active site 1166018012105 TDP-binding site; other site 1166018012106 acceptor substrate-binding pocket; other site 1166018012107 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1166018012108 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1166018012109 Histidine kinase; Region: His_kinase; pfam06580 1166018012110 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018012111 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 1166018012112 active site 1166018012113 phosphorylation site [posttranslational modification] 1166018012114 intermolecular recognition site; other site 1166018012115 dimerization interface [polypeptide binding]; other site 1166018012116 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1166018012117 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1166018012118 Chain length determinant protein; Region: Wzz; cl15801 1166018012119 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1166018012120 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1166018012121 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 1166018012122 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1166018012123 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018012124 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 1166018012125 O-Antigen ligase; Region: Wzy_C; pfam04932 1166018012126 Phosphotransferase enzyme family; Region: APH; pfam01636 1166018012127 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1166018012128 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1166018012129 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 1166018012130 putative trimer interface [polypeptide binding]; other site 1166018012131 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 1166018012132 trimer interface [polypeptide binding]; other site 1166018012133 active site 1166018012134 substrate binding site [chemical binding]; other site 1166018012135 putative CoA binding site [chemical binding]; other site 1166018012136 CoA binding site [chemical binding]; other site 1166018012137 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 1166018012138 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018012139 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018012140 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 1166018012141 PAS domain S-box; Region: sensory_box; TIGR00229 1166018012142 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 1166018012143 putative active site [active] 1166018012144 heme pocket [chemical binding]; other site 1166018012145 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1166018012146 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 1166018012147 putative active site [active] 1166018012148 heme pocket [chemical binding]; other site 1166018012149 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 1166018012150 putative active site [active] 1166018012151 heme pocket [chemical binding]; other site 1166018012152 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 1166018012153 dimer interface [polypeptide binding]; other site 1166018012154 phosphorylation site [posttranslational modification] 1166018012155 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 1166018012156 ATP binding site [chemical binding]; other site 1166018012157 Mg2+ binding site [ion binding]; other site 1166018012158 G-X-G motif; other site 1166018012159 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018012160 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 1166018012161 active site 1166018012162 phosphorylation site [posttranslational modification] 1166018012163 intermolecular recognition site; other site 1166018012164 dimerization interface [polypeptide binding]; other site 1166018012165 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 1166018012166 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1166018012167 FIST N domain; Region: FIST; pfam08495 1166018012168 FIST C domain; Region: FIST_C; pfam10442 1166018012169 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018012170 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 1166018012171 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1166018012172 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 1166018012173 Mg++ binding site [ion binding]; other site 1166018012174 putative catalytic motif [active] 1166018012175 substrate binding site [chemical binding]; other site 1166018012176 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1166018012177 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 1166018012178 active site 1166018012179 phosphorylation site [posttranslational modification] 1166018012180 intermolecular recognition site; other site 1166018012181 dimerization interface [polypeptide binding]; other site 1166018012182 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 1166018012183 Walker A motif; other site 1166018012184 ATP binding site [chemical binding]; other site 1166018012185 Walker B motif; other site 1166018012186 arginine finger; other site 1166018012187 PAS fold; Region: PAS_3; pfam08447 1166018012188 PAS fold; Region: PAS_4; pfam08448 1166018012189 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1166018012190 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 1166018012191 putative active site [active] 1166018012192 heme pocket [chemical binding]; other site 1166018012193 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 1166018012194 dimer interface [polypeptide binding]; other site 1166018012195 phosphorylation site [posttranslational modification] 1166018012196 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 1166018012197 ATP binding site [chemical binding]; other site 1166018012198 Mg2+ binding site [ion binding]; other site 1166018012199 G-X-G motif; other site 1166018012200 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1166018012201 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 1166018012202 active site 1166018012203 phosphorylation site [posttranslational modification] 1166018012204 intermolecular recognition site; other site 1166018012205 dimerization interface [polypeptide binding]; other site 1166018012206 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 1166018012207 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1166018012208 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1166018012209 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 1166018012210 Walker A motif; other site 1166018012211 ATP binding site [chemical binding]; other site 1166018012212 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1166018012213 Walker B motif; other site 1166018012214 arginine finger; other site 1166018012215 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1166018012216 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018012217 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018012218 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018012219 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1166018012220 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018012221 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018012222 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018012223 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 1166018012224 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 1166018012225 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 1166018012226 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 1166018012227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018012228 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1166018012229 NAD(P) binding site [chemical binding]; other site 1166018012230 active site 1166018012231 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 1166018012232 dimer interface [polypeptide binding]; other site 1166018012233 phosphorylation site [posttranslational modification] 1166018012234 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018012235 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 1166018012236 ATP binding site [chemical binding]; other site 1166018012237 Mg2+ binding site [ion binding]; other site 1166018012238 G-X-G motif; other site 1166018012239 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018012240 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018012241 WHG domain; Region: WHG; pfam13305 1166018012242 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1166018012243 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 1166018012244 S-adenosylmethionine binding site [chemical binding]; other site 1166018012245 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1166018012246 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: Bcp; COG1225 1166018012247 fructokinase; Reviewed; Region: PRK09557 1166018012248 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1166018012249 nucleotide binding site [chemical binding]; other site 1166018012250 butyrate kinase; Provisional; Region: PRK03011 1166018012251 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 1166018012252 putative active site [active] 1166018012253 dimerization interface [polypeptide binding]; other site 1166018012254 putative tRNAtyr binding site [nucleotide binding]; other site 1166018012255 serine O-acetyltransferase; Region: cysE; TIGR01172 1166018012256 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 1166018012257 trimer interface [polypeptide binding]; other site 1166018012258 active site 1166018012259 substrate binding site [chemical binding]; other site 1166018012260 CoA binding site [chemical binding]; other site 1166018012261 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1166018012262 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018012263 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1166018012264 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1166018012265 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1166018012266 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 1166018012267 active site 1166018012268 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1166018012269 Protein of unknown function (DUF502); Region: DUF502; cl01107 1166018012270 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018012271 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 1166018012272 active site 1166018012273 phosphorylation site [posttranslational modification] 1166018012274 intermolecular recognition site; other site 1166018012275 dimerization interface [polypeptide binding]; other site 1166018012276 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1166018012277 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 1166018012278 hinge; other site 1166018012279 active site 1166018012280 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1166018012281 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1166018012282 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1166018012283 catalytic residue [active] 1166018012284 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1166018012285 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018012286 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1166018012287 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1166018012288 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1166018012289 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1166018012290 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1166018012291 GSCFA family; Region: GSCFA; pfam08885 1166018012292 Domain of unknown function DUF59; Region: DUF59; pfam01883 1166018012293 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1166018012294 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 1166018012295 Walker A motif; other site 1166018012296 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1166018012297 alpha-galactosidase; Region: PLN02808; cl17638 1166018012298 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 1166018012299 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; cd00081 1166018012300 protein-splicing catalytic site; other site 1166018012301 thioester formation/cholesterol transfer; other site 1166018012302 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1166018012303 Protein export membrane protein; Region: SecD_SecF; cl14618 1166018012304 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1166018012305 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1166018012306 Protein of unknown function (DUF664); Region: DUF664; pfam04978 1166018012307 DinB superfamily; Region: DinB_2; pfam12867 1166018012308 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1166018012309 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 1166018012310 ATP binding site [chemical binding]; other site 1166018012311 Mg++ binding site [ion binding]; other site 1166018012312 motif III; other site 1166018012313 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 1166018012314 nucleotide binding region [chemical binding]; other site 1166018012315 ATP-binding site [chemical binding]; other site 1166018012316 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 1166018012317 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1166018012318 putative active site [active] 1166018012319 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018012320 Interdomain contacts; other site 1166018012321 Cytokine receptor motif; other site 1166018012322 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018012323 Interdomain contacts; other site 1166018012324 Cytokine receptor motif; other site 1166018012325 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018012326 Interdomain contacts; other site 1166018012327 Cytokine receptor motif; other site 1166018012328 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018012329 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018012330 Interdomain contacts; other site 1166018012331 Cytokine receptor motif; other site 1166018012332 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018012333 Interdomain contacts; other site 1166018012334 Cytokine receptor motif; other site 1166018012335 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1166018012336 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1166018012337 Rhomboid family; Region: Rhomboid; pfam01694 1166018012338 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018012339 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018012340 WHG domain; Region: WHG; pfam13305 1166018012341 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1166018012342 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1166018012343 catalytic residues [active] 1166018012344 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1166018012345 dimer interface [polypeptide binding]; other site 1166018012346 FMN binding site [chemical binding]; other site 1166018012347 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1166018012348 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1166018012349 Pirin-related protein [General function prediction only]; Region: COG1741 1166018012350 Pirin; Region: Pirin; pfam02678 1166018012351 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1166018012352 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1166018012353 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1166018012354 NAD binding site [chemical binding]; other site 1166018012355 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1166018012356 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1166018012357 hypothetical protein; Provisional; Region: PRK11820 1166018012358 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1166018012359 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1166018012360 mannonate dehydratase; Region: uxuA; TIGR00695 1166018012361 mannonate dehydratase; Provisional; Region: PRK03906 1166018012362 Glucuronate isomerase; Region: UxaC; pfam02614 1166018012363 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1166018012364 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 1166018012365 Peptidase family M28; Region: Peptidase_M28; pfam04389 1166018012366 putative metal binding site [ion binding]; other site 1166018012367 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1166018012368 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 1166018012369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018012370 homodimer interface [polypeptide binding]; other site 1166018012371 catalytic residue [active] 1166018012372 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1166018012373 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1166018012374 active site 1166018012375 Chorismate mutase type II; Region: CM_2; cl00693 1166018012376 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1166018012377 Prephenate dehydratase; Region: PDT; pfam00800 1166018012378 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 1166018012379 putative L-Phe binding site [chemical binding]; other site 1166018012380 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1166018012381 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 1166018012382 ATP binding site [chemical binding]; other site 1166018012383 Mg2+ binding site [ion binding]; other site 1166018012384 G-X-G motif; other site 1166018012385 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 1166018012386 ATP binding site [chemical binding]; other site 1166018012387 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 1166018012388 active site 1166018012389 putative metal-binding site [ion binding]; other site 1166018012390 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1166018012391 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1166018012392 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1166018012393 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1166018012394 SLBB domain; Region: SLBB; pfam10531 1166018012395 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1166018012396 SLBB domain; Region: SLBB; pfam10531 1166018012397 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1166018012398 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1166018012399 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1166018012400 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1166018012401 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1166018012402 Walker A/P-loop; other site 1166018012403 ATP binding site [chemical binding]; other site 1166018012404 Q-loop/lid; other site 1166018012405 ABC transporter signature motif; other site 1166018012406 Walker B; other site 1166018012407 D-loop; other site 1166018012408 H-loop/switch region; other site 1166018012409 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1166018012410 putative carbohydrate binding site [chemical binding]; other site 1166018012411 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 1166018012412 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1166018012413 inhibitor-cofactor binding pocket; inhibition site 1166018012414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018012415 catalytic residue [active] 1166018012416 WbqC-like protein family; Region: WbqC; pfam08889 1166018012417 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1166018012418 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1166018012419 putative trimer interface [polypeptide binding]; other site 1166018012420 putative CoA binding site [chemical binding]; other site 1166018012421 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018012422 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 1166018012423 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 1166018012424 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 1166018012425 metal-binding site 1166018012426 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 1166018012427 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018012428 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018012429 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 1166018012430 putative ADP-binding pocket [chemical binding]; other site 1166018012431 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1166018012432 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1166018012433 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1166018012434 putative metal binding site; other site 1166018012435 putative acyl transferase; Provisional; Region: PRK10502 1166018012436 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 1166018012437 putative trimer interface [polypeptide binding]; other site 1166018012438 putative active site [active] 1166018012439 putative substrate binding site [chemical binding]; other site 1166018012440 putative CoA binding site [chemical binding]; other site 1166018012441 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1166018012442 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 1166018012443 metal-binding site 1166018012444 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1166018012445 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 1166018012446 Mg++ binding site [ion binding]; other site 1166018012447 putative catalytic motif [active] 1166018012448 substrate binding site [chemical binding]; other site 1166018012449 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 1166018012450 Response regulator receiver domain; Region: Response_reg; pfam00072 1166018012451 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 1166018012452 active site 1166018012453 phosphorylation site [posttranslational modification] 1166018012454 intermolecular recognition site; other site 1166018012455 dimerization interface [polypeptide binding]; other site 1166018012456 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1166018012457 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1166018012458 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1166018012459 putative acyl-acceptor binding pocket; other site 1166018012460 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 1166018012461 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1166018012462 cobalamin binding residues [chemical binding]; other site 1166018012463 putative BtuC binding residues; other site 1166018012464 dimer interface [polypeptide binding]; other site 1166018012465 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 1166018012466 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018012467 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1166018012468 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1166018012469 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1166018012470 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1166018012471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1166018012472 AAA domain; Region: AAA_33; pfam13671 1166018012473 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1166018012474 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1166018012475 DinB superfamily; Region: DinB_2; pfam12867 1166018012476 Protein of unknown function (DUF664); Region: DUF664; pfam04978 1166018012477 SnoaL-like domain; Region: SnoaL_2; pfam12680 1166018012478 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 1166018012479 DinB superfamily; Region: DinB_2; pfam12867 1166018012480 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 1166018012481 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1166018012482 DNA-binding site [nucleotide binding]; DNA binding site 1166018012483 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 1166018012484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018012485 homodimer interface [polypeptide binding]; other site 1166018012486 catalytic residue [active] 1166018012487 Predicted acyl esterases [General function prediction only]; Region: COG2936 1166018012488 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018012489 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1166018012490 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1166018012491 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1166018012492 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1166018012493 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_9; cd07245 1166018012494 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018012495 dimer interface [polypeptide binding]; other site 1166018012496 putative metal binding site [ion binding]; other site 1166018012497 Peptidase family M1; Region: Peptidase_M1; pfam01433 1166018012498 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 1166018012499 Zn binding site [ion binding]; other site 1166018012500 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018012501 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 1166018012502 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1166018012503 DHH family; Region: DHH; pfam01368 1166018012504 DHHA1 domain; Region: DHHA1; pfam02272 1166018012505 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1166018012506 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1166018012507 Walker A/P-loop; other site 1166018012508 ATP binding site [chemical binding]; other site 1166018012509 Q-loop/lid; other site 1166018012510 ABC transporter signature motif; other site 1166018012511 Walker B; other site 1166018012512 D-loop; other site 1166018012513 H-loop/switch region; other site 1166018012514 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; cl17869 1166018012515 Recombination protein O N terminal; Region: RecO_N; pfam11967 1166018012516 Recombination protein O C terminal; Region: RecO_C; pfam02565 1166018012517 SdiA-regulated; Region: SdiA-regulated; cd09971 1166018012518 putative active site [active] 1166018012519 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1166018012520 Cytochrome P450; Region: p450; pfam00067 1166018012521 BNR repeat-like domain; Region: BNR_2; pfam13088 1166018012522 BNR repeat-like domain; Region: BNR_2; pfam13088 1166018012523 short chain dehydrogenase; Provisional; Region: PRK06701 1166018012524 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1166018012525 NAD binding site [chemical binding]; other site 1166018012526 metal binding site [ion binding]; metal-binding site 1166018012527 active site 1166018012528 short chain dehydrogenase; Provisional; Region: PRK06701 1166018012529 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1166018012530 NAD binding site [chemical binding]; other site 1166018012531 metal binding site [ion binding]; metal-binding site 1166018012532 active site 1166018012533 Peptidase family M23; Region: Peptidase_M23; pfam01551 1166018012534 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 1166018012535 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 1166018012536 metal ion-dependent adhesion site (MIDAS); other site 1166018012537 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018012538 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 1166018012539 binding surface 1166018012540 TPR motif; other site 1166018012541 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018012542 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 1166018012543 binding surface 1166018012544 TPR repeat; Region: TPR_11; pfam13414 1166018012545 TPR motif; other site 1166018012546 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 1166018012547 dimer interface [polypeptide binding]; other site 1166018012548 phosphorylation site [posttranslational modification] 1166018012549 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 1166018012550 ATP binding site [chemical binding]; other site 1166018012551 Mg2+ binding site [ion binding]; other site 1166018012552 G-X-G motif; other site 1166018012553 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 1166018012554 active site 1166018012555 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1166018012556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018012557 Coenzyme A binding pocket [chemical binding]; other site 1166018012558 Protein of unknown function DUF262; Region: DUF262; pfam03235 1166018012559 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1166018012560 MoxR-like ATPases [General function prediction only]; Region: COG0714 1166018012561 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; cl17189 1166018012562 Walker A motif; other site 1166018012563 ATP binding site [chemical binding]; other site 1166018012564 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1166018012565 FAD binding domain; Region: FAD_binding_4; pfam01565 1166018012566 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1166018012567 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1166018012568 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1166018012569 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1166018012570 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1166018012571 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 1166018012572 catalytic loop [active] 1166018012573 iron binding site [ion binding]; other site 1166018012574 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1166018012575 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1166018012576 putative hydrophobic ligand binding site [chemical binding]; other site 1166018012577 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1166018012578 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018012579 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1166018012580 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018012581 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1166018012582 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 1166018012583 ATP binding site [chemical binding]; other site 1166018012584 putative Mg++ binding site [ion binding]; other site 1166018012585 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 1166018012586 nucleotide binding region [chemical binding]; other site 1166018012587 ATP-binding site [chemical binding]; other site 1166018012588 RQC domain; Region: RQC; pfam09382 1166018012589 HRDC domain; Region: HRDC; pfam00570 1166018012590 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1166018012591 putative active site pocket [active] 1166018012592 dimerization interface [polypeptide binding]; other site 1166018012593 putative catalytic residue [active] 1166018012594 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1166018012595 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1166018012596 active site 1166018012597 catalytic residues [active] 1166018012598 metal binding site [ion binding]; metal-binding site 1166018012599 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1166018012600 tartrate dehydrogenase; Region: TTC; TIGR02089 1166018012601 (R)-citramalate synthase; Provisional; Region: PRK09389 1166018012602 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1166018012603 active site 1166018012604 catalytic residues [active] 1166018012605 metal binding site [ion binding]; metal-binding site 1166018012606 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1166018012607 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1166018012608 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 1166018012609 substrate binding site [chemical binding]; other site 1166018012610 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1166018012611 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1166018012612 substrate binding site [chemical binding]; other site 1166018012613 ligand binding site [chemical binding]; other site 1166018012614 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1166018012615 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1166018012616 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 1166018012617 dimerization interface [polypeptide binding]; other site 1166018012618 putative DNA binding site [nucleotide binding]; other site 1166018012619 putative Zn2+ binding site [ion binding]; other site 1166018012620 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1166018012621 DinB superfamily; Region: DinB_2; pfam12867 1166018012622 metal-dependent hydrolase; Provisional; Region: PRK13291 1166018012623 DinB superfamily; Region: DinB_2; pfam12867 1166018012624 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1166018012625 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1166018012626 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 1166018012627 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1166018012628 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1166018012629 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018012630 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018012631 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1166018012632 Metal-binding active site; metal-binding site 1166018012633 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018012634 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018012635 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1166018012636 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 1166018012637 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1166018012638 threonine dehydratase; Validated; Region: PRK08639 1166018012639 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 1166018012640 tetramer interface [polypeptide binding]; other site 1166018012641 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018012642 catalytic residue [active] 1166018012643 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1166018012644 putative Ile/Val binding site [chemical binding]; other site 1166018012645 ketol-acid reductoisomerase; Region: ilvC; TIGR00465 1166018012646 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1166018012647 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1166018012648 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1166018012649 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1166018012650 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1166018012651 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 1166018012652 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1166018012653 PYR/PP interface [polypeptide binding]; other site 1166018012654 dimer interface [polypeptide binding]; other site 1166018012655 TPP binding site [chemical binding]; other site 1166018012656 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1166018012657 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 1166018012658 TPP-binding site [chemical binding]; other site 1166018012659 dimer interface [polypeptide binding]; other site 1166018012660 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1166018012661 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 1166018012662 S-adenosylmethionine binding site [chemical binding]; other site 1166018012663 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1166018012664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018012665 NAD(P) binding site [chemical binding]; other site 1166018012666 active site 1166018012667 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1166018012668 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 1166018012669 dimer interface [polypeptide binding]; other site 1166018012670 active site 1166018012671 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1166018012672 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018012673 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1166018012674 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 1166018012675 protein binding site [polypeptide binding]; other site 1166018012676 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 1166018012677 protein binding site [polypeptide binding]; other site 1166018012678 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1166018012679 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1166018012680 NADP-binding site; other site 1166018012681 homotetramer interface [polypeptide binding]; other site 1166018012682 substrate binding site [chemical binding]; other site 1166018012683 homodimer interface [polypeptide binding]; other site 1166018012684 active site 1166018012685 Sporulation related domain; Region: SPOR; pfam05036 1166018012686 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1166018012687 FAD binding domain; Region: FAD_binding_4; pfam01565 1166018012688 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1166018012689 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1166018012690 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1166018012691 nucleotide binding site [chemical binding]; other site 1166018012692 Predicted transcriptional regulators [Transcription]; Region: COG1695 1166018012693 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1166018012694 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018012695 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018012696 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018012697 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018012698 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018012699 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018012700 SusD family; Region: SusD; pfam07980 1166018012701 Clostridium epsilon toxin ETX/Bacillus mosquitocidal toxin MTX2; Region: ETX_MTX2; pfam03318 1166018012702 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1166018012703 Histidine kinase; Region: HisKA_3; pfam07730 1166018012704 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 1166018012705 ATP binding site [chemical binding]; other site 1166018012706 Mg2+ binding site [ion binding]; other site 1166018012707 G-X-G motif; other site 1166018012708 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018012709 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 1166018012710 active site 1166018012711 phosphorylation site [posttranslational modification] 1166018012712 intermolecular recognition site; other site 1166018012713 dimerization interface [polypeptide binding]; other site 1166018012714 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 1166018012715 DNA binding residues [nucleotide binding] 1166018012716 dimerization interface [polypeptide binding]; other site 1166018012717 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018012718 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018012719 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 1166018012720 dimer interface [polypeptide binding]; other site 1166018012721 phosphorylation site [posttranslational modification] 1166018012722 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 1166018012723 ATP binding site [chemical binding]; other site 1166018012724 Mg2+ binding site [ion binding]; other site 1166018012725 G-X-G motif; other site 1166018012726 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1166018012727 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 1166018012728 active site 1166018012729 phosphorylation site [posttranslational modification] 1166018012730 intermolecular recognition site; other site 1166018012731 dimerization interface [polypeptide binding]; other site 1166018012732 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 1166018012733 DNA binding site [nucleotide binding] 1166018012734 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 1166018012735 dimer interface [polypeptide binding]; other site 1166018012736 allosteric magnesium binding site [ion binding]; other site 1166018012737 active site 1166018012738 aspartate-rich active site metal binding site; other site 1166018012739 Schiff base residues; other site 1166018012740 dihydroorotase; Reviewed; Region: PRK09236 1166018012741 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 1166018012742 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 1166018012743 active site 1166018012744 Membrane protein of unknown function; Region: DUF360; pfam04020 1166018012745 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1166018012746 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1166018012747 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1166018012748 metal binding site [ion binding]; metal-binding site 1166018012749 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 1166018012750 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1166018012751 substrate binding site [chemical binding]; other site 1166018012752 glutamase interaction surface [polypeptide binding]; other site 1166018012753 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1166018012754 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018012755 Coenzyme A binding pocket [chemical binding]; other site 1166018012756 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 1166018012757 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1166018012758 catalytic residues [active] 1166018012759 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 1166018012760 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1166018012761 putative active site [active] 1166018012762 oxyanion strand; other site 1166018012763 catalytic triad [active] 1166018012764 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1166018012765 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1166018012766 NADP-binding site; other site 1166018012767 homotetramer interface [polypeptide binding]; other site 1166018012768 substrate binding site [chemical binding]; other site 1166018012769 homodimer interface [polypeptide binding]; other site 1166018012770 active site 1166018012771 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1166018012772 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1166018012773 SLBB domain; Region: SLBB; pfam10531 1166018012774 SLBB domain; Region: SLBB; pfam10531 1166018012775 SLBB domain; Region: SLBB; pfam10531 1166018012776 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1166018012777 SLBB domain; Region: SLBB; pfam10531 1166018012778 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1166018012779 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 1166018012780 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1166018012781 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1166018012782 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 1166018012783 active site 1166018012784 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 1166018012785 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1166018012786 active site 1166018012787 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1166018012788 trimer interface [polypeptide binding]; other site 1166018012789 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1166018012790 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1166018012791 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1166018012792 Right handed beta helix region; Region: Beta_helix; pfam13229 1166018012793 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 1166018012794 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1166018012795 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1166018012796 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1166018012797 Beta-lactamase; Region: Beta-lactamase; pfam00144 1166018012798 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1166018012799 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018012800 Dual-action HEIGH metallo-peptidase; Region: Peptidase_M57; pfam12388 1166018012801 Dual-action HEIGH metallo-peptidase; Region: Peptidase_M57; pfam12388 1166018012802 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1166018012803 active site 1166018012804 catalytic residues [active] 1166018012805 Protein of unknown function, DUF547; Region: DUF547; pfam04784 1166018012806 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1166018012807 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1166018012808 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1166018012809 Histidine kinase; Region: HisKA_3; pfam07730 1166018012810 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 1166018012811 ATP binding site [chemical binding]; other site 1166018012812 Mg2+ binding site [ion binding]; other site 1166018012813 G-X-G motif; other site 1166018012814 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1166018012815 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 1166018012816 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1166018012817 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1166018012818 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1166018012819 active site 1166018012820 HIGH motif; other site 1166018012821 nucleotide binding site [chemical binding]; other site 1166018012822 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1166018012823 KMSKS motif; other site 1166018012824 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1166018012825 tRNA binding surface [nucleotide binding]; other site 1166018012826 anticodon binding site; other site 1166018012827 M28 Zn-Peptidases; Region: M28_like_6; cd08656 1166018012828 Peptidase family M28; Region: Peptidase_M28; pfam04389 1166018012829 metal binding site [ion binding]; metal-binding site 1166018012830 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1166018012831 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1166018012832 active site 1166018012833 (T/H)XGH motif; other site 1166018012834 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1166018012835 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 1166018012836 catalytic site [active] 1166018012837 G-X2-G-X-G-K; other site 1166018012838 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1166018012839 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018012840 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 1166018012841 DNA binding residues [nucleotide binding] 1166018012842 rod shape-determining protein MreC; Provisional; Region: PRK13922 1166018012843 rod shape-determining protein MreC; Region: MreC; pfam04085 1166018012844 rod shape-determining protein MreB; Provisional; Region: PRK13927 1166018012845 MreB and similar proteins; Region: MreB_like; cd10225 1166018012846 nucleotide binding site [chemical binding]; other site 1166018012847 Mg binding site [ion binding]; other site 1166018012848 putative protofilament interaction site [polypeptide binding]; other site 1166018012849 RodZ interaction site [polypeptide binding]; other site 1166018012850 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1166018012851 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 1166018012852 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018012853 catalytic residue [active] 1166018012854 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1166018012855 Amidase; Region: Amidase; cl11426 1166018012856 Uncharacterized conserved protein [Function unknown]; Region: COG4748 1166018012857 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1166018012858 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1166018012859 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1166018012860 active site 1166018012861 catalytic residues [active] 1166018012862 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1166018012863 RHS protein; Region: RHS; pfam03527 1166018012864 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1166018012865 RHS Repeat; Region: RHS_repeat; pfam05593 1166018012866 RHS Repeat; Region: RHS_repeat; pfam05593 1166018012867 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1166018012868 RHS Repeat; Region: RHS_repeat; pfam05593 1166018012869 RHS Repeat; Region: RHS_repeat; pfam05593 1166018012870 RHS Repeat; Region: RHS_repeat; pfam05593 1166018012871 RHS Repeat; Region: RHS_repeat; pfam05593 1166018012872 RHS Repeat; Region: RHS_repeat; cl11982 1166018012873 RHS protein; Region: RHS; pfam03527 1166018012874 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1166018012875 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1166018012876 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1166018012877 Methane oxygenase PmoA; Region: PmoA; pfam14100 1166018012878 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1166018012879 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1166018012880 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 1166018012881 SelR domain; Region: SelR; pfam01641 1166018012882 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1166018012883 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1166018012884 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018012885 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 1166018012886 DNA binding residues [nucleotide binding] 1166018012887 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1166018012888 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 1166018012889 PYR/PP interface [polypeptide binding]; other site 1166018012890 dimer interface [polypeptide binding]; other site 1166018012891 TPP binding site [chemical binding]; other site 1166018012892 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1166018012893 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 1166018012894 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018012895 AAA domain; Region: AAA_21; pfam13304 1166018012896 Walker A/P-loop; other site 1166018012897 ATP binding site [chemical binding]; other site 1166018012898 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018012899 Walker B; other site 1166018012900 D-loop; other site 1166018012901 H-loop/switch region; other site 1166018012902 transketolase; Reviewed; Region: PRK05899 1166018012903 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 1166018012904 TPP-binding site [chemical binding]; other site 1166018012905 dimer interface [polypeptide binding]; other site 1166018012906 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1166018012907 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 1166018012908 catalytic triad [active] 1166018012909 Peptidase family M23; Region: Peptidase_M23; pfam01551 1166018012910 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1166018012911 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1166018012912 Ligand binding site; other site 1166018012913 Putative Catalytic site; other site 1166018012914 DXD motif; other site 1166018012915 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1166018012916 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 1166018012917 Peptidase family M48; Region: Peptidase_M48; pfam01435 1166018012918 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1166018012919 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1166018012920 CoA-ligase; Region: Ligase_CoA; pfam00549 1166018012921 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1166018012922 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1166018012923 Walker A/P-loop; other site 1166018012924 ATP binding site [chemical binding]; other site 1166018012925 Q-loop/lid; other site 1166018012926 ABC transporter signature motif; other site 1166018012927 Walker B; other site 1166018012928 D-loop; other site 1166018012929 H-loop/switch region; other site 1166018012930 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1166018012931 dimer interface [polypeptide binding]; other site 1166018012932 substrate binding site [chemical binding]; other site 1166018012933 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018012934 metal binding site [ion binding]; metal-binding site 1166018012935 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1166018012936 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1166018012937 Histidine kinase; Region: HisKA_3; pfam07730 1166018012938 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 1166018012939 ATP binding site [chemical binding]; other site 1166018012940 Mg2+ binding site [ion binding]; other site 1166018012941 G-X-G motif; other site 1166018012942 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018012943 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 1166018012944 active site 1166018012945 phosphorylation site [posttranslational modification] 1166018012946 intermolecular recognition site; other site 1166018012947 dimerization interface [polypeptide binding]; other site 1166018012948 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 1166018012949 DNA binding residues [nucleotide binding] 1166018012950 dimerization interface [polypeptide binding]; other site 1166018012951 Peptidase S8 family domain, uncharacterized subfamily 9; Region: Peptidases_S8_9; cd07493 1166018012952 active site 1166018012953 catalytic triad [active] 1166018012954 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018012955 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1166018012956 putative ADP-ribose binding site [chemical binding]; other site 1166018012957 putative active site [active] 1166018012958 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 1166018012959 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018012960 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 1166018012961 TPR motif; other site 1166018012962 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1166018012963 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1166018012964 NAD binding site [chemical binding]; other site 1166018012965 catalytic Zn binding site [ion binding]; other site 1166018012966 substrate binding site [chemical binding]; other site 1166018012967 structural Zn binding site [ion binding]; other site 1166018012968 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 1166018012969 dimerization interface [polypeptide binding]; other site 1166018012970 putative active cleft [active] 1166018012971 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1166018012972 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 1166018012973 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018012974 SusD family; Region: SusD; pfam07980 1166018012975 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018012976 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018012977 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018012978 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018012979 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 1166018012980 Citrate transporter; Region: CitMHS; pfam03600 1166018012981 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1166018012982 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1166018012983 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1166018012984 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 1166018012985 Domain of unknown function (DUF955); Region: DUF955; cl01076 1166018012986 putative DNA binding site [nucleotide binding]; other site 1166018012987 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1166018012988 dimerization interface [polypeptide binding]; other site 1166018012989 putative Zn2+ binding site [ion binding]; other site 1166018012990 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1166018012991 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1166018012992 nucleotide binding site [chemical binding]; other site 1166018012993 Putative esterase; Region: Esterase; pfam00756 1166018012994 S-formylglutathione hydrolase; Region: PLN02442 1166018012995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1166018012996 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1166018012997 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 1166018012998 S-adenosylmethionine binding site [chemical binding]; other site 1166018012999 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1166018013000 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1166018013001 active site 1166018013002 HIGH motif; other site 1166018013003 KMSKS motif; other site 1166018013004 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1166018013005 tRNA binding surface [nucleotide binding]; other site 1166018013006 anticodon binding site; other site 1166018013007 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 1166018013008 dimer interface [polypeptide binding]; other site 1166018013009 putative tRNA-binding site [nucleotide binding]; other site 1166018013010 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018013011 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 1166018013012 active site 1166018013013 phosphorylation site [posttranslational modification] 1166018013014 intermolecular recognition site; other site 1166018013015 dimerization interface [polypeptide binding]; other site 1166018013016 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 1166018013017 DNA binding residues [nucleotide binding] 1166018013018 dimerization interface [polypeptide binding]; other site 1166018013019 Phosphotransferase enzyme family; Region: APH; pfam01636 1166018013020 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1166018013021 ATP binding site [chemical binding]; other site 1166018013022 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1166018013023 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 1166018013024 binding surface 1166018013025 TPR motif; other site 1166018013026 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1166018013027 Histidine kinase; Region: HisKA_3; pfam07730 1166018013028 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 1166018013029 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 1166018013030 Active site serine [active] 1166018013031 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1166018013032 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018013033 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1166018013034 ATP-grasp domain; Region: ATP-grasp; pfam02222 1166018013035 L-aspartate oxidase; Provisional; Region: PRK09077 1166018013036 L-aspartate oxidase; Provisional; Region: PRK06175 1166018013037 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1166018013038 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018013039 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1166018013040 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 1166018013041 N-terminal plug; other site 1166018013042 ligand-binding site [chemical binding]; other site 1166018013043 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018013044 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 1166018013045 DNA photolyase; Region: DNA_photolyase; pfam00875 1166018013046 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 1166018013047 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 1166018013048 Probable Catalytic site; other site 1166018013049 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018013050 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018013051 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018013052 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 1166018013053 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018013054 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1166018013055 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1166018013056 Repair protein; Region: Repair_PSII; pfam04536 1166018013057 Repair protein; Region: Repair_PSII; pfam04536 1166018013058 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1166018013059 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1166018013060 acyl-activating enzyme (AAE) consensus motif; other site 1166018013061 putative AMP binding site [chemical binding]; other site 1166018013062 putative active site [active] 1166018013063 putative CoA binding site [chemical binding]; other site 1166018013064 quinolinate synthetase; Provisional; Region: PRK09375 1166018013065 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 1166018013066 putative active site [active] 1166018013067 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1166018013068 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 1166018013069 dimerization interface [polypeptide binding]; other site 1166018013070 active site 1166018013071 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1166018013072 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 1166018013073 putative NAD(P) binding site [chemical binding]; other site 1166018013074 catalytic Zn binding site [ion binding]; other site 1166018013075 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 1166018013076 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1166018013077 putative ligand binding site [chemical binding]; other site 1166018013078 putative NAD binding site [chemical binding]; other site 1166018013079 catalytic site [active] 1166018013080 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1166018013081 choline dehydrogenase; Validated; Region: PRK02106 1166018013082 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1166018013083 glycerol kinase; Provisional; Region: glpK; PRK00047 1166018013084 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 1166018013085 N- and C-terminal domain interface [polypeptide binding]; other site 1166018013086 active site 1166018013087 MgATP binding site [chemical binding]; other site 1166018013088 catalytic site [active] 1166018013089 metal binding site [ion binding]; metal-binding site 1166018013090 putative homotetramer interface [polypeptide binding]; other site 1166018013091 glycerol binding site [chemical binding]; other site 1166018013092 homodimer interface [polypeptide binding]; other site 1166018013093 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1166018013094 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1166018013095 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1166018013096 active site 1166018013097 HIGH motif; other site 1166018013098 dimer interface [polypeptide binding]; other site 1166018013099 KMSKS motif; other site 1166018013100 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 1166018013101 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1166018013102 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1166018013103 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1166018013104 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 1166018013105 homodimer interface [polypeptide binding]; other site 1166018013106 substrate-cofactor binding pocket; other site 1166018013107 catalytic residue [active] 1166018013108 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1166018013109 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1166018013110 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1166018013111 Beta-Casp domain; Region: Beta-Casp; smart01027 1166018013112 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1166018013113 YtxH-like protein; Region: YtxH; pfam12732 1166018013114 NHAD transporter family protein; Provisional; Region: PLN00137 1166018013115 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1166018013116 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1166018013117 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1166018013118 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1166018013119 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1166018013120 active site 1166018013121 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 1166018013122 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1166018013123 catalytic residue [active] 1166018013124 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cl07889 1166018013125 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1166018013126 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1166018013127 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1166018013128 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1166018013129 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 1166018013130 E3 interaction surface; other site 1166018013131 lipoyl attachment site [posttranslational modification]; other site 1166018013132 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018013133 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018013134 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1166018013135 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1166018013136 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1166018013137 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 1166018013138 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018013139 spermidine synthase; Provisional; Region: PRK03612 1166018013140 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1166018013141 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1166018013142 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 1166018013143 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1166018013144 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1166018013145 Cytochrome c; Region: Cytochrom_C; cl11414 1166018013146 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1166018013147 Histidine kinase; Region: His_kinase; pfam06580 1166018013148 Histidine kinase; Region: His_kinase; pfam06580 1166018013149 Histidine kinase; Region: His_kinase; pfam06580 1166018013150 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018013151 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1166018013152 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1166018013153 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1166018013154 Histidine kinase; Region: HisKA_3; pfam07730 1166018013155 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 1166018013156 ATP binding site [chemical binding]; other site 1166018013157 Mg2+ binding site [ion binding]; other site 1166018013158 G-X-G motif; other site 1166018013159 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 1166018013160 active site 1166018013161 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018013162 phosphorylation site [posttranslational modification] 1166018013163 intermolecular recognition site; other site 1166018013164 dimerization interface [polypeptide binding]; other site 1166018013165 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 1166018013166 DNA binding residues [nucleotide binding] 1166018013167 dimerization interface [polypeptide binding]; other site 1166018013168 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018013169 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018013170 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018013171 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 1166018013172 active site triad [active] 1166018013173 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 1166018013174 glycogen binding site [chemical binding]; other site 1166018013175 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1166018013176 putative lipoprotein, rSAM/lipoprotein system; Region: lipo_with_rSAM; TIGR04134 1166018013177 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 1166018013178 Histidine kinase; Region: His_kinase; pfam06580 1166018013179 Histidine kinase; Region: His_kinase; pfam06580 1166018013180 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1166018013181 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 1166018013182 active site 1166018013183 phosphorylation site [posttranslational modification] 1166018013184 intermolecular recognition site; other site 1166018013185 dimerization interface [polypeptide binding]; other site 1166018013186 LytTr DNA-binding domain; Region: LytTR; smart00850 1166018013187 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1166018013188 Amino acid permease; Region: AA_permease_2; pfam13520 1166018013189 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1166018013190 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 1166018013191 TPR motif; other site 1166018013192 TPR repeat; Region: TPR_11; pfam13414 1166018013193 binding surface 1166018013194 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 1166018013195 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1166018013196 Walker A motif; other site 1166018013197 ATP binding site [chemical binding]; other site 1166018013198 Walker B motif; other site 1166018013199 arginine finger; other site 1166018013200 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 1166018013201 binding surface 1166018013202 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1166018013203 TPR motif; other site 1166018013204 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1166018013205 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1166018013206 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1166018013207 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1166018013208 gluconate transporter; Region: gntP; TIGR00791 1166018013209 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1166018013210 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1166018013211 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1166018013212 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1166018013213 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1166018013214 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1166018013215 Transposase IS200 like; Region: Y1_Tnp; cl00848 1166018013216 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018013217 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018013218 ligand binding site [chemical binding]; other site 1166018013219 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1166018013220 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 1166018013221 Amidohydrolase; Region: Amidohydro_4; pfam13147 1166018013222 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 1166018013223 active site 1166018013224 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 1166018013225 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1166018013226 C-N hydrolase family amidase; Provisional; Region: PRK10438 1166018013227 putative active site [active] 1166018013228 catalytic triad [active] 1166018013229 dimer interface [polypeptide binding]; other site 1166018013230 multimer interface [polypeptide binding]; other site 1166018013231 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 1166018013232 active site 1166018013233 catalytic residues [active] 1166018013234 metal binding site [ion binding]; metal-binding site 1166018013235 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1166018013236 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1166018013237 putative active site [active] 1166018013238 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 1166018013239 putative DNA binding site [nucleotide binding]; other site 1166018013240 dimerization interface [polypeptide binding]; other site 1166018013241 putative Zn2+ binding site [ion binding]; other site 1166018013242 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1166018013243 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 1166018013244 FMN binding site [chemical binding]; other site 1166018013245 active site 1166018013246 substrate binding site [chemical binding]; other site 1166018013247 catalytic residue [active] 1166018013248 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1166018013249 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1166018013250 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1166018013251 substrate binding site [chemical binding]; other site 1166018013252 ATP binding site [chemical binding]; other site 1166018013253 OPT oligopeptide transporter protein; Region: OPT; cl14607 1166018013254 putative oligopeptide transporter, OPT family; Region: TIGR00733 1166018013255 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...; Region: OMP_decarboxylase_like; cd04725 1166018013256 active site 1166018013257 dimer interface [polypeptide binding]; other site 1166018013258 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1166018013259 MarR family; Region: MarR_2; cl17246 1166018013260 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1166018013261 Outer membrane efflux protein; Region: OEP; pfam02321 1166018013262 Outer membrane efflux protein; Region: OEP; pfam02321 1166018013263 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1166018013264 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018013265 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018013266 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1166018013267 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 1166018013268 putative substrate translocation pore; other site 1166018013269 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 1166018013270 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1166018013271 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1166018013272 potential catalytic triad [active] 1166018013273 conserved cys residue [active] 1166018013274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018013275 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1166018013276 NAD(P) binding site [chemical binding]; other site 1166018013277 active site 1166018013278 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1166018013279 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1166018013280 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1166018013281 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1166018013282 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1166018013283 Active_site [active] 1166018013284 Yqey-like protein; Region: YqeY; pfam09424 1166018013285 Colicin V production protein; Region: Colicin_V; pfam02674 1166018013286 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1166018013287 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 1166018013288 FeS/SAM binding site; other site 1166018013289 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1166018013290 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 1166018013291 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018013292 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018013293 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018013294 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 1166018013295 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018013296 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018013297 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018013298 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018013299 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1166018013300 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1166018013301 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1166018013302 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1166018013303 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 1166018013304 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1166018013305 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 1166018013306 dimer interface [polypeptide binding]; other site 1166018013307 anticodon binding site; other site 1166018013308 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...; Region: AspRS_core; cd00777 1166018013309 homodimer interface [polypeptide binding]; other site 1166018013310 motif 1; other site 1166018013311 active site 1166018013312 motif 2; other site 1166018013313 GAD domain; Region: GAD; pfam02938 1166018013314 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1166018013315 active site 1166018013316 motif 3; other site 1166018013317 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1166018013318 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1166018013319 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1166018013320 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1166018013321 active site 1166018013322 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1166018013323 Coenzyme A binding pocket [chemical binding]; other site 1166018013324 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1166018013325 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 1166018013326 S-adenosylmethionine binding site [chemical binding]; other site 1166018013327 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 1166018013328 dimerization interface [polypeptide binding]; other site 1166018013329 putative DNA binding site [nucleotide binding]; other site 1166018013330 putative Zn2+ binding site [ion binding]; other site 1166018013331 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1166018013332 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1166018013333 active site 1166018013334 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1166018013335 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1166018013336 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1166018013337 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1166018013338 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 1166018013339 N-terminal plug; other site 1166018013340 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1166018013341 ligand-binding site [chemical binding]; other site 1166018013342 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1166018013343 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1166018013344 putative NAD(P) binding site [chemical binding]; other site 1166018013345 putative substrate binding site [chemical binding]; other site 1166018013346 catalytic Zn binding site [ion binding]; other site 1166018013347 structural Zn binding site [ion binding]; other site 1166018013348 dimer interface [polypeptide binding]; other site 1166018013349 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1166018013350 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 1166018013351 active site 1166018013352 phosphorylation site [posttranslational modification] 1166018013353 intermolecular recognition site; other site 1166018013354 dimerization interface [polypeptide binding]; other site 1166018013355 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 1166018013356 DNA binding residues [nucleotide binding] 1166018013357 dimerization interface [polypeptide binding]; other site 1166018013358 Histidine kinase; Region: HisKA_3; pfam07730 1166018013359 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1166018013360 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 1166018013361 ATP binding site [chemical binding]; other site 1166018013362 Mg2+ binding site [ion binding]; other site 1166018013363 G-X-G motif; other site 1166018013364 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1166018013365 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 1166018013366 active site 1166018013367 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1166018013368 Uncharacterized conserved protein [Function unknown]; Region: COG4104 1166018013369 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1166018013370 Protein of unknown function DUF58; Region: DUF58; pfam01882 1166018013371 excinuclease ABC subunit B; Provisional; Region: PRK05298 1166018013372 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 1166018013373 ATP binding site [chemical binding]; other site 1166018013374 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 1166018013375 nucleotide binding region [chemical binding]; other site 1166018013376 ATP-binding site [chemical binding]; other site 1166018013377 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1166018013378 UvrB/uvrC motif; Region: UVR; pfam02151 1166018013379 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1166018013380 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 1166018013381 TPP-binding site; other site 1166018013382 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 1166018013383 PYR/PP interface [polypeptide binding]; other site 1166018013384 dimer interface [polypeptide binding]; other site 1166018013385 TPP binding site [chemical binding]; other site 1166018013386 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1166018013387 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1166018013388 dinuclear metal binding motif [ion binding]; other site 1166018013389 Ferritin-like domain; Region: Ferritin_2; pfam13668 1166018013390 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1166018013391 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1166018013392 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 1166018013393 DNA binding residues [nucleotide binding] 1166018013394 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 1166018013395 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed; Region: PRK04169 1166018013396 PcrB family; Region: PcrB; pfam01884 1166018013397 phosphate binding site [ion binding]; other site 1166018013398 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1166018013399 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1166018013400 nucleotide binding site [chemical binding]; other site 1166018013401 substrate binding site [chemical binding]; other site 1166018013402 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 1166018013403 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 1166018013404 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1166018013405 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 1166018013406 Walker A motif; other site 1166018013407 ATP binding site [chemical binding]; other site 1166018013408 Walker B motif; other site 1166018013409 arginine finger; other site 1166018013410 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1166018013411 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 1166018013412 dimerization interface [polypeptide binding]; other site 1166018013413 putative DNA binding site [nucleotide binding]; other site 1166018013414 putative Zn2+ binding site [ion binding]; other site 1166018013415 D-galactonate transporter; Region: 2A0114; TIGR00893 1166018013416 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 1166018013417 putative substrate translocation pore; other site 1166018013418 beta-lactamase TEM; Provisional; Region: PRK15442 1166018013419 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1166018013420 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1166018013421 EamA-like transporter family; Region: EamA; pfam00892 1166018013422 EamA-like transporter family; Region: EamA; pfam00892 1166018013423 GTP-binding protein Der; Reviewed; Region: PRK00093 1166018013424 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1166018013425 G1 box; other site 1166018013426 GTP/Mg2+ binding site [chemical binding]; other site 1166018013427 Switch I region; other site 1166018013428 G2 box; other site 1166018013429 Switch II region; other site 1166018013430 G3 box; other site 1166018013431 G4 box; other site 1166018013432 G5 box; other site 1166018013433 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1166018013434 G1 box; other site 1166018013435 GTP/Mg2+ binding site [chemical binding]; other site 1166018013436 Switch I region; other site 1166018013437 G2 box; other site 1166018013438 G3 box; other site 1166018013439 Switch II region; other site 1166018013440 G4 box; other site 1166018013441 G5 box; other site 1166018013442 GTPase Era; Reviewed; Region: era; PRK00089 1166018013443 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1166018013444 G1 box; other site 1166018013445 GTP/Mg2+ binding site [chemical binding]; other site 1166018013446 Switch I region; other site 1166018013447 G2 box; other site 1166018013448 Switch II region; other site 1166018013449 G3 box; other site 1166018013450 G4 box; other site 1166018013451 G5 box; other site 1166018013452 KH domain; Region: KH_2; pfam07650 1166018013453 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018013454 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018013455 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018013456 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018013457 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018013458 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018013459 starch binding outer membrane protein SusD; Region: SusD; cd08977 1166018013460 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 1166018013461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 1166018013462 Putative glucoamylase; Region: Glycoamylase; pfam10091 1166018013463 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018013464 SusD family; Region: SusD; pfam07980 1166018013465 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018013466 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018013467 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018013468 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1166018013469 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 1166018013470 putative transporter; Provisional; Region: PRK10484 1166018013471 Na binding site [ion binding]; other site 1166018013472 substrate binding site [chemical binding]; other site 1166018013473 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1166018013474 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1166018013475 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1166018013476 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 1166018013477 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1166018013478 NodB motif; other site 1166018013479 putative active site [active] 1166018013480 putative catalytic site [active] 1166018013481 putative Zn binding site [ion binding]; other site 1166018013482 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 1166018013483 ribosomal protein L33; Region: rpl33; CHL00104 1166018013484 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 1166018013485 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1166018013486 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1166018013487 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1166018013488 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1166018013489 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 1166018013490 AMP binding site [chemical binding]; other site 1166018013491 metal binding site [ion binding]; metal-binding site 1166018013492 active site 1166018013493 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1166018013494 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1166018013495 active site 1166018013496 substrate-binding site [chemical binding]; other site 1166018013497 metal-binding site [ion binding] 1166018013498 ATP binding site [chemical binding]; other site 1166018013499 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1166018013500 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 1166018013501 non-specific DNA binding site [nucleotide binding]; other site 1166018013502 salt bridge; other site 1166018013503 sequence-specific DNA binding site [nucleotide binding]; other site 1166018013504 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1166018013505 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1166018013506 putative active site [active] 1166018013507 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1166018013508 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1166018013509 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 1166018013510 FeS/SAM binding site; other site 1166018013511 TRAM domain; Region: TRAM; pfam01938 1166018013512 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1166018013513 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1166018013514 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 1166018013515 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1166018013516 DNA-binding site [nucleotide binding]; DNA binding site 1166018013517 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 1166018013518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018013519 homodimer interface [polypeptide binding]; other site 1166018013520 catalytic residue [active] 1166018013521 CHRD domain; Region: CHRD; pfam07452 1166018013522 CHRD domain; Region: CHRD; pfam07452 1166018013523 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 1166018013524 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 1166018013525 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1166018013526 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 1166018013527 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 1166018013528 Sulfatase; Region: Sulfatase; cl17466 1166018013529 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; pfam07745 1166018013530 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 1166018013531 putative active site [active] 1166018013532 Zn binding site [ion binding]; other site 1166018013533 CAAX protease self-immunity; Region: Abi; pfam02517 1166018013534 DoxX-like family; Region: DoxX_2; pfam13564 1166018013535 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1166018013536 dimer interface [polypeptide binding]; other site 1166018013537 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018013538 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1166018013539 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1166018013540 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1166018013541 homotetramer interface [polypeptide binding]; other site 1166018013542 ligand binding site [chemical binding]; other site 1166018013543 catalytic site [active] 1166018013544 NAD binding site [chemical binding]; other site 1166018013545 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1166018013546 Cupin domain; Region: Cupin_2; cl17218 1166018013547 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1166018013548 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018013549 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1166018013550 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1166018013551 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1166018013552 Putative esterase; Region: Esterase; pfam00756 1166018013553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1166018013554 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1166018013555 proposed catalytic triad [active] 1166018013556 active site nucleophile [active] 1166018013557 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 1166018013558 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1166018013559 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1166018013560 active site 1166018013561 nucleotide binding site [chemical binding]; other site 1166018013562 HIGH motif; other site 1166018013563 KMSKS motif; other site 1166018013564 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1166018013565 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 1166018013566 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 1166018013567 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1166018013568 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1166018013569 active site 1166018013570 DNA binding site [nucleotide binding] 1166018013571 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 1166018013572 non-specific DNA binding site [nucleotide binding]; other site 1166018013573 salt bridge; other site 1166018013574 sequence-specific DNA binding site [nucleotide binding]; other site 1166018013575 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 1166018013576 Catalytic site [active] 1166018013577 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1166018013578 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1166018013579 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1166018013580 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_12; cd07255 1166018013581 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1166018013582 putative metal binding site [ion binding]; other site 1166018013583 chaperone protein DnaJ; Provisional; Region: PRK14299 1166018013584 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 1166018013585 HSP70 interaction site [polypeptide binding]; other site 1166018013586 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1166018013587 dimer interface [polypeptide binding]; other site 1166018013588 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1166018013589 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1166018013590 The MopB_1 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. These members belong to...; Region: MopB_1; cd02762 1166018013591 putative [Fe4-S4] binding site [ion binding]; other site 1166018013592 putative molybdopterin cofactor binding site [chemical binding]; other site 1166018013593 The MopB_CT_1 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_1; cd02782 1166018013594 putative molybdopterin cofactor binding site; other site 1166018013595 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1166018013596 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018013597 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1166018013598 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018013599 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1166018013600 Fic family protein [Function unknown]; Region: COG3177 1166018013601 Fic/DOC family; Region: Fic; pfam02661 1166018013602 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1166018013603 DNA binding residues [nucleotide binding] 1166018013604 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1166018013605 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1166018013606 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1166018013607 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1166018013608 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1166018013609 Zn binding site [ion binding]; other site 1166018013610 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1166018013611 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 1166018013612 Walker A/P-loop; other site 1166018013613 ATP binding site [chemical binding]; other site 1166018013614 Q-loop/lid; other site 1166018013615 ABC transporter signature motif; other site 1166018013616 Walker B; other site 1166018013617 D-loop; other site 1166018013618 H-loop/switch region; other site 1166018013619 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1166018013620 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1166018013621 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1166018013622 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1166018013623 substrate binding site; other site 1166018013624 dimer interface; other site 1166018013625 membrane ATPase/protein kinase; Provisional; Region: PRK09435 1166018013626 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 1166018013627 Walker A; other site 1166018013628 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1166018013629 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 1166018013630 DNA polymerase III subunit beta; Validated; Region: PRK05643 1166018013631 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 1166018013632 putative DNA binding surface [nucleotide binding]; other site 1166018013633 dimer interface [polypeptide binding]; other site 1166018013634 beta-clamp/clamp loader binding surface; other site 1166018013635 beta-clamp/translesion DNA polymerase binding surface; other site 1166018013636 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 1166018013637 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1166018013638 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1166018013639 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1166018013640 catalytic site [active] 1166018013641 subunit interface [polypeptide binding]; other site 1166018013642 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1166018013643 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1166018013644 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1166018013645 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1166018013646 alphaNTD - beta interaction site [polypeptide binding]; other site 1166018013647 alphaNTD homodimer interface [polypeptide binding]; other site 1166018013648 alphaNTD - beta' interaction site [polypeptide binding]; other site 1166018013649 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1166018013650 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1166018013651 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1166018013652 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 1166018013653 RNA binding surface [nucleotide binding]; other site 1166018013654 30S ribosomal protein S11; Validated; Region: PRK05309 1166018013655 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1166018013656 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1166018013657 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1166018013658 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 1166018013659 rRNA binding site [nucleotide binding]; other site 1166018013660 predicted 30S ribosome binding site; other site 1166018013661 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 1166018013662 active site 1166018013663 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1166018013664 SecY translocase; Region: SecY; pfam00344 1166018013665 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1166018013666 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 1166018013667 23S rRNA binding site [nucleotide binding]; other site 1166018013668 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1166018013669 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1166018013670 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1166018013671 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 1166018013672 23S rRNA interface [nucleotide binding]; other site 1166018013673 L21e interface [polypeptide binding]; other site 1166018013674 5S rRNA interface [nucleotide binding]; other site 1166018013675 L27 interface [polypeptide binding]; other site 1166018013676 L5 interface [polypeptide binding]; other site 1166018013677 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1166018013678 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1166018013679 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1166018013680 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1166018013681 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1166018013682 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1166018013683 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1166018013684 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1166018013685 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1166018013686 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1166018013687 RNA binding site [nucleotide binding]; other site 1166018013688 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1166018013689 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1166018013690 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 1166018013691 23S rRNA interface [nucleotide binding]; other site 1166018013692 putative translocon interaction site; other site 1166018013693 signal recognition particle (SRP54) interaction site; other site 1166018013694 L23 interface [polypeptide binding]; other site 1166018013695 trigger factor interaction site; other site 1166018013696 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 1166018013697 23S rRNA interface [nucleotide binding]; other site 1166018013698 5S rRNA interface [nucleotide binding]; other site 1166018013699 putative antibiotic binding site [chemical binding]; other site 1166018013700 L25 interface [polypeptide binding]; other site 1166018013701 L27 interface [polypeptide binding]; other site 1166018013702 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1166018013703 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 1166018013704 G-X-X-G motif; other site 1166018013705 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1166018013706 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 1166018013707 putative translocon binding site; other site 1166018013708 protein-rRNA interface [nucleotide binding]; other site 1166018013709 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1166018013710 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1166018013711 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1166018013712 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1166018013713 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1166018013714 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1166018013715 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1166018013716 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 1166018013717 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1166018013718 active site 1166018013719 catalytic site [active] 1166018013720 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 1166018013721 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1166018013722 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 1166018013723 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1166018013724 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 1166018013725 ligand binding site [chemical binding]; other site 1166018013726 flexible hinge region; other site 1166018013727 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 1166018013728 S-adenosylmethionine binding site [chemical binding]; other site 1166018013729 Dienelactone hydrolase family; Region: DLH; pfam01738 1166018013730 phosphodiesterase YaeI; Provisional; Region: PRK11340 1166018013731 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1166018013732 putative active site [active] 1166018013733 putative metal binding site [ion binding]; other site 1166018013734 glycine dehydrogenase; Provisional; Region: PRK05367 1166018013735 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 1166018013736 tetramer interface [polypeptide binding]; other site 1166018013737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018013738 catalytic residue [active] 1166018013739 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 1166018013740 tetramer interface [polypeptide binding]; other site 1166018013741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1166018013742 catalytic residue [active] 1166018013743 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1166018013744 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 1166018013745 CGNR zinc finger; Region: zf-CGNR; pfam11706 1166018013746 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1166018013747 Strictosidine synthase; Region: Str_synth; pfam03088 1166018013748 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1166018013749 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1166018013750 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 1166018013751 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1166018013752 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 1166018013753 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 1166018013754 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018013755 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018013756 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018013757 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 1166018013758 Zn binding site [ion binding]; other site 1166018013759 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 1166018013760 Zn binding site [ion binding]; other site 1166018013761 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1166018013762 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018013763 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1166018013764 MoaE interaction surface [polypeptide binding]; other site 1166018013765 MoeB interaction surface [polypeptide binding]; other site 1166018013766 thiocarboxylated glycine; other site 1166018013767 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 1166018013768 MoaE homodimer interface [polypeptide binding]; other site 1166018013769 MoaD interaction [polypeptide binding]; other site 1166018013770 active site residues [active] 1166018013771 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 1166018013772 putative catalytic site [active] 1166018013773 putative metal binding site [ion binding]; other site 1166018013774 putative phosphate binding site [ion binding]; other site 1166018013775 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1166018013776 Sm and related proteins; Region: Sm_like; cl00259 1166018013777 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1166018013778 putative oligomer interface [polypeptide binding]; other site 1166018013779 putative RNA binding site [nucleotide binding]; other site 1166018013780 NusA N-terminal domain; Region: NusA_N; pfam08529 1166018013781 transcription termination factor NusA; Region: NusA; TIGR01953 1166018013782 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 1166018013783 RNA binding site [nucleotide binding]; other site 1166018013784 homodimer interface [polypeptide binding]; other site 1166018013785 NusA-like KH domain; Region: KH_5; pfam13184 1166018013786 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 1166018013787 G-X-X-G motif; other site 1166018013788 translation initiation factor IF-2; Region: IF-2; TIGR00487 1166018013789 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1166018013790 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1166018013791 G1 box; other site 1166018013792 putative GEF interaction site [polypeptide binding]; other site 1166018013793 GTP/Mg2+ binding site [chemical binding]; other site 1166018013794 Switch I region; other site 1166018013795 G2 box; other site 1166018013796 G3 box; other site 1166018013797 Switch II region; other site 1166018013798 G4 box; other site 1166018013799 G5 box; other site 1166018013800 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 1166018013801 Translation-initiation factor 2; Region: IF-2; pfam11987 1166018013802 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 1166018013803 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 1166018013804 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1166018013805 active site 1166018013806 trimer interface [polypeptide binding]; other site 1166018013807 allosteric site; other site 1166018013808 active site lid [active] 1166018013809 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1166018013810 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1166018013811 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1166018013812 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1166018013813 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1166018013814 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1166018013815 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1166018013816 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 1166018013817 putative active site [active] 1166018013818 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 1166018013819 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1166018013820 active site 1166018013821 catalytic site [active] 1166018013822 substrate binding site [chemical binding]; other site 1166018013823 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1166018013824 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1166018013825 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1166018013826 shikimate binding site; other site 1166018013827 NAD(P) binding site [chemical binding]; other site 1166018013828 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1166018013829 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1166018013830 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 1166018013831 active site 1166018013832 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1166018013833 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 1166018013834 catalytic motif [active] 1166018013835 Zn binding site [ion binding]; other site 1166018013836 RibD C-terminal domain; Region: RibD_C; pfam01872 1166018013837 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1166018013838 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 1166018013839 S-adenosylmethionine binding site [chemical binding]; other site 1166018013840 MoxR-like ATPases [General function prediction only]; Region: COG0714 1166018013841 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 1166018013842 Walker A motif; other site 1166018013843 ATP binding site [chemical binding]; other site 1166018013844 Walker B motif; other site 1166018013845 arginine finger; other site 1166018013846 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1166018013847 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1166018013848 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1166018013849 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 1166018013850 substrate binding pocket [chemical binding]; other site 1166018013851 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 1166018013852 B12 binding site [chemical binding]; other site 1166018013853 cobalt ligand [ion binding]; other site 1166018013854 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1166018013855 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1166018013856 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1166018013857 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1166018013858 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1166018013859 Walker A/P-loop; other site 1166018013860 ATP binding site [chemical binding]; other site 1166018013861 Q-loop/lid; other site 1166018013862 ABC transporter signature motif; other site 1166018013863 Walker B; other site 1166018013864 D-loop; other site 1166018013865 H-loop/switch region; other site 1166018013866 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1166018013867 HlyD family secretion protein; Region: HlyD_3; pfam13437 1166018013868 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 1166018013869 active site 1166018013870 catalytic residues [active] 1166018013871 metal binding site [ion binding]; metal-binding site 1166018013872 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1166018013873 active site 1166018013874 catalytic triad [active] 1166018013875 oxyanion hole [active] 1166018013876 MafB19-like deaminase; Region: MafB19-deam; pfam14437 1166018013877 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1166018013878 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 1166018013879 active site 1166018013880 metal binding site [ion binding]; metal-binding site 1166018013881 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1166018013882 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1166018013883 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1166018013884 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 1166018013885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 1166018013886 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1166018013887 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1166018013888 gamma subunit interface [polypeptide binding]; other site 1166018013889 LBP interface [polypeptide binding]; other site 1166018013890 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1166018013891 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1166018013892 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 1166018013893 alpha subunit interaction interface [polypeptide binding]; other site 1166018013894 Walker A motif; other site 1166018013895 ATP binding site [chemical binding]; other site 1166018013896 Walker B motif; other site 1166018013897 inhibitor binding site; inhibition site 1166018013898 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1166018013899 GH3 auxin-responsive promoter; Region: GH3; pfam03321 1166018013900 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1166018013901 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1166018013902 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1166018013903 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 1166018013904 active site 1166018013905 motif I; other site 1166018013906 motif II; other site 1166018013907 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 1166018013908 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1166018013909 catalytic residues [active] 1166018013910 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1166018013911 MraW methylase family; Region: Methyltransf_5; cl17771 1166018013912 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1166018013913 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1166018013914 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1166018013915 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 1166018013916 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1166018013917 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1166018013918 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1166018013919 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1166018013920 RIP metalloprotease RseP; Region: TIGR00054 1166018013921 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 1166018013922 active site 1166018013923 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 1166018013924 protein binding site [polypeptide binding]; other site 1166018013925 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 1166018013926 putative substrate binding region [chemical binding]; other site 1166018013927 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1166018013928 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 1166018013929 Walker A motif; other site 1166018013930 ATP binding site [chemical binding]; other site 1166018013931 Walker B motif; other site 1166018013932 arginine finger; other site 1166018013933 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1166018013934 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1166018013935 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1166018013936 active site 1166018013937 Zn binding site [ion binding]; other site 1166018013938 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1166018013939 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1166018013940 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1166018013941 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1166018013942 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1166018013943 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 1166018013944 Mg++ binding site [ion binding]; other site 1166018013945 putative catalytic motif [active] 1166018013946 putative substrate binding site [chemical binding]; other site 1166018013947 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1166018013948 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1166018013949 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1166018013950 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 1166018013951 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 1166018013952 Peptidase family M28; Region: Peptidase_M28; pfam04389 1166018013953 metal binding site [ion binding]; metal-binding site 1166018013954 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 1166018013955 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 1166018013956 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 1166018013957 metal binding site [ion binding]; metal-binding site 1166018013958 ligand binding site [chemical binding]; other site 1166018013959 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 1166018013960 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 1166018013961 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1166018013962 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1166018013963 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1166018013964 Walker A/P-loop; other site 1166018013965 ATP binding site [chemical binding]; other site 1166018013966 Q-loop/lid; other site 1166018013967 ABC transporter signature motif; other site 1166018013968 Walker B; other site 1166018013969 D-loop; other site 1166018013970 H-loop/switch region; other site 1166018013971 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1166018013972 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1166018013973 active site 1166018013974 putative substrate binding pocket [chemical binding]; other site 1166018013975 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 1166018013976 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1166018013977 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 1166018013978 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1166018013979 Leucine rich repeat; Region: LRR_8; pfam13855 1166018013980 phosphonatase-like hydrolase; Region: PhnX-like; TIGR03351 1166018013981 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 1166018013982 motif II; other site 1166018013983 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 1166018013984 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1166018013985 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 1166018013986 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018013987 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 1166018013988 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018013989 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 1166018013990 starch binding outer membrane protein SusD; Region: SusD; cl17845 1166018013991 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 1166018013992 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 1166018013993 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1166018013994 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1166018013995 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 1166018013996 active site 1166018013997 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 1166018013998 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1166018013999 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1166018014000 active site 1166018014001 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1166018014002 nudix motif; other site 1166018014003 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1166018014004 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; cd02883 1166018014005 nudix motif; other site 1166018014006 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 1166018014007 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 1166018014008 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1166018014009 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1166018014010 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018014011 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1166018014012 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018014013 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018014014 ligand binding site [chemical binding]; other site 1166018014015 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1166018014016 5-oxoprolinase; Region: PLN02666 1166018014017 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1166018014018 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1166018014019 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1166018014020 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1166018014021 RF-1 domain; Region: RF-1; pfam00472 1166018014022 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1166018014023 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1166018014024 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 1166018014025 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 1166018014026 tetramer interface [polypeptide binding]; other site 1166018014027 TPP-binding site [chemical binding]; other site 1166018014028 heterodimer interface [polypeptide binding]; other site 1166018014029 phosphorylation loop region [posttranslational modification] 1166018014030 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1166018014031 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1166018014032 PYR/PP interface [polypeptide binding]; other site 1166018014033 dimer interface [polypeptide binding]; other site 1166018014034 TPP binding site [chemical binding]; other site 1166018014035 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1166018014036 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1166018014037 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1166018014038 active site 1166018014039 Phosphotransferase enzyme family; Region: APH; pfam01636 1166018014040 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1166018014041 putative active site [active] 1166018014042 putative substrate binding site [chemical binding]; other site 1166018014043 ATP binding site [chemical binding]; other site 1166018014044 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 1166018014045 dimer interface [polypeptide binding]; other site 1166018014046 active site 1166018014047 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1166018014048 active site 1166018014049 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1166018014050 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1166018014051 ligand binding site [chemical binding]; other site 1166018014052 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1166018014053 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1166018014054 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1166018014055 Ligand binding site; other site 1166018014056 Putative Catalytic site; other site 1166018014057 DXD motif; other site 1166018014058 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 1166018014059 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1166018014060 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 1166018014061 metal-binding site 1166018014062 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1166018014063 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 1166018014064 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1166018014065 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 1166018014066 active site 1166018014067 Cephalosporin hydroxylase; Region: CmcI; pfam04989 1166018014068 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1166018014069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018014070 NAD(P) binding site [chemical binding]; other site 1166018014071 active site 1166018014072 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 1166018014073 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1166018014074 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 1166018014075 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1166018014076 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 1166018014077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1166018014078 NAD(P) binding site [chemical binding]; other site 1166018014079 active site 1166018014080 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1166018014081 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 1166018014082 substrate binding site; other site 1166018014083 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1166018014084 Part of AAA domain; Region: AAA_19; pfam13245 1166018014085 Family description; Region: UvrD_C_2; pfam13538 1166018014086 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 1166018014087 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 1166018014088 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018014089 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1166018014090 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018014091 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 1166018014092 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018014093 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1166018014094 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1166018014095 TraB family; Region: TraB; pfam01963 1166018014096 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1166018014097 sugar 1,4-lactone oxidases; Region: FAD_lactone_ox; TIGR01678 1166018014098 FAD binding domain; Region: FAD_binding_4; pfam01565 1166018014099 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1166018014100 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1166018014101 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1166018014102 GAF domain; Region: GAF; pfam01590 1166018014103 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1166018014104 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1166018014105 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 1166018014106 dimer interface [polypeptide binding]; other site 1166018014107 phosphorylation site [posttranslational modification] 1166018014108 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 1166018014109 ATP binding site [chemical binding]; other site 1166018014110 Mg2+ binding site [ion binding]; other site 1166018014111 G-X-G motif; other site 1166018014112 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1166018014113 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1166018014114 Substrate binding site; other site 1166018014115 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1166018014116 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1166018014117 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1166018014118 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 1166018014119 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 1166018014120 active site 1166018014121 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1166018014122 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1166018014123 putative NADP binding site [chemical binding]; other site 1166018014124 putative substrate binding site [chemical binding]; other site 1166018014125 active site 1166018014126 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1166018014127 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1166018014128 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 1166018014129 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1166018014130 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1166018014131 active site 1166018014132 ATP-binding site [chemical binding]; other site 1166018014133 pantoate-binding site; other site 1166018014134 HXXH motif; other site 1166018014135 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 1166018014136 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 1166018014137 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1166018014138 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 1166018014139 glutaminase active site [active] 1166018014140 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 1166018014141 dimer interface [polypeptide binding]; other site 1166018014142 active site 1166018014143 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 1166018014144 dimer interface [polypeptide binding]; other site 1166018014145 active site 1166018014146 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 1166018014147 heterodimer interface [polypeptide binding]; other site 1166018014148 substrate interaction site [chemical binding]; other site