-- dump date 20140619_232404 -- class Genbank::misc_feature -- table misc_feature_note -- id note 561231000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 561231000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 561231000003 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 561231000004 Walker A motif; other site 561231000005 ATP binding site [chemical binding]; other site 561231000006 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 561231000007 Walker B motif; other site 561231000008 arginine finger; other site 561231000009 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 561231000010 DnaA box-binding interface [nucleotide binding]; other site 561231000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 561231000012 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 561231000013 putative DNA binding surface [nucleotide binding]; other site 561231000014 dimer interface [polypeptide binding]; other site 561231000015 beta-clamp/clamp loader binding surface; other site 561231000016 beta-clamp/translesion DNA polymerase binding surface; other site 561231000017 recF protein; Region: recf; TIGR00611 561231000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231000019 Walker A/P-loop; other site 561231000020 ATP binding site [chemical binding]; other site 561231000021 Q-loop/lid; other site 561231000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231000023 ABC transporter signature motif; other site 561231000024 Walker B; other site 561231000025 D-loop; other site 561231000026 H-loop/switch region; other site 561231000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 561231000028 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 561231000029 Mg2+ binding site [ion binding]; other site 561231000030 G-X-G motif; other site 561231000031 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 561231000032 anchoring element; other site 561231000033 dimer interface [polypeptide binding]; other site 561231000034 ATP binding site [chemical binding]; other site 561231000035 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 561231000036 active site 561231000037 putative metal-binding site [ion binding]; other site 561231000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 561231000039 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 561231000040 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561231000041 putative substrate translocation pore; other site 561231000042 Cache domain; Region: Cache_1; pfam02743 561231000043 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 561231000044 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231000045 dimer interface [polypeptide binding]; other site 561231000046 putative CheW interface [polypeptide binding]; other site 561231000047 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561231000048 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231000049 DNA binding site [nucleotide binding] 561231000050 domain linker motif; other site 561231000051 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 561231000052 dimerization interface (closed form) [polypeptide binding]; other site 561231000053 ligand binding site [chemical binding]; other site 561231000054 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 561231000055 active site 561231000056 P-loop; other site 561231000057 phosphorylation site [posttranslational modification] 561231000058 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 561231000059 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 561231000060 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 561231000061 active site 561231000062 methionine cluster; other site 561231000063 phosphorylation site [posttranslational modification] 561231000064 metal binding site [ion binding]; metal-binding site 561231000065 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 561231000066 beta-galactosidase; Region: BGL; TIGR03356 561231000067 sugar phosphate phosphatase; Provisional; Region: PRK10513 561231000068 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 561231000069 active site 561231000070 motif I; other site 561231000071 motif II; other site 561231000072 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561231000073 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 561231000074 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231000075 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 561231000076 dimerization interface [polypeptide binding]; other site 561231000077 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561231000078 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 561231000079 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 561231000080 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 561231000081 inhibitor site; inhibition site 561231000082 active site 561231000083 dimer interface [polypeptide binding]; other site 561231000084 catalytic residue [active] 561231000085 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 561231000086 active site 561231000087 tetramer interface [polypeptide binding]; other site 561231000088 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 561231000089 active site 561231000090 tetramer interface [polypeptide binding]; other site 561231000091 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561231000092 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 561231000093 dimer interface [polypeptide binding]; other site 561231000094 conserved gate region; other site 561231000095 putative PBP binding loops; other site 561231000096 ABC-ATPase subunit interface; other site 561231000097 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 561231000098 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561231000099 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 561231000100 dimer interface [polypeptide binding]; other site 561231000101 conserved gate region; other site 561231000102 putative PBP binding loops; other site 561231000103 ABC-ATPase subunit interface; other site 561231000104 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561231000105 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231000106 Walker A/P-loop; other site 561231000107 ATP binding site [chemical binding]; other site 561231000108 Q-loop/lid; other site 561231000109 ABC transporter signature motif; other site 561231000110 Walker B; other site 561231000111 D-loop; other site 561231000112 H-loop/switch region; other site 561231000113 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231000114 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231000115 Walker A/P-loop; other site 561231000116 ATP binding site [chemical binding]; other site 561231000117 Q-loop/lid; other site 561231000118 ABC transporter signature motif; other site 561231000119 Walker B; other site 561231000120 D-loop; other site 561231000121 H-loop/switch region; other site 561231000122 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231000123 Transcriptional regulators [Transcription]; Region: FadR; COG2186 561231000124 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231000125 DNA-binding site [nucleotide binding]; DNA binding site 561231000126 FCD domain; Region: FCD; pfam07729 561231000127 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 561231000128 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 561231000129 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 561231000130 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 561231000131 active site 561231000132 intersubunit interface [polypeptide binding]; other site 561231000133 catalytic residue [active] 561231000134 galactonate dehydratase; Provisional; Region: PRK14017 561231000135 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 561231000136 putative active site pocket [active] 561231000137 putative metal binding site [ion binding]; other site 561231000138 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 561231000139 D-galactonate transporter; Region: 2A0114; TIGR00893 561231000140 putative substrate translocation pore; other site 561231000141 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 561231000142 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 561231000143 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561231000144 Walker A/P-loop; other site 561231000145 ATP binding site [chemical binding]; other site 561231000146 Q-loop/lid; other site 561231000147 ABC transporter signature motif; other site 561231000148 Walker B; other site 561231000149 D-loop; other site 561231000150 H-loop/switch region; other site 561231000151 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561231000152 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 561231000153 dimer interface [polypeptide binding]; other site 561231000154 conserved gate region; other site 561231000155 putative PBP binding loops; other site 561231000156 ABC-ATPase subunit interface; other site 561231000157 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 561231000158 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 561231000159 active site 561231000160 dimer interface [polypeptide binding]; other site 561231000161 non-prolyl cis peptide bond; other site 561231000162 insertion regions; other site 561231000163 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 561231000164 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231000165 substrate binding pocket [chemical binding]; other site 561231000166 membrane-bound complex binding site; other site 561231000167 hinge residues; other site 561231000168 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 561231000169 active site 561231000170 P-loop; other site 561231000171 phosphorylation site [posttranslational modification] 561231000172 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 561231000173 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 561231000174 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 561231000175 beta-galactosidase; Region: BGL; TIGR03356 561231000176 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 561231000177 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 561231000178 hypothetical protein; Provisional; Region: PRK11616 561231000179 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 561231000180 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 561231000181 putative dimer interface [polypeptide binding]; other site 561231000182 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 561231000183 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 561231000184 putative dimer interface [polypeptide binding]; other site 561231000185 putative transporter; Validated; Region: PRK03818 561231000186 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 561231000187 TrkA-C domain; Region: TrkA_C; pfam02080 561231000188 TrkA-C domain; Region: TrkA_C; pfam02080 561231000189 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 561231000190 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 561231000191 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 561231000192 transmembrane helices; other site 561231000193 sensory histidine kinase DcuS; Provisional; Region: PRK11086 561231000194 PAS domain; Region: PAS; smart00091 561231000195 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 561231000196 ATP binding site [chemical binding]; other site 561231000197 Mg2+ binding site [ion binding]; other site 561231000198 G-X-G motif; other site 561231000199 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 561231000200 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 561231000201 active site 561231000202 phosphorylation site [posttranslational modification] 561231000203 intermolecular recognition site; other site 561231000204 dimerization interface [polypeptide binding]; other site 561231000205 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 561231000206 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561231000207 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 561231000208 peptide binding site [polypeptide binding]; other site 561231000209 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561231000210 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 561231000211 dimer interface [polypeptide binding]; other site 561231000212 conserved gate region; other site 561231000213 putative PBP binding loops; other site 561231000214 ABC-ATPase subunit interface; other site 561231000215 dipeptide transporter; Provisional; Region: PRK10913 561231000216 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561231000217 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 561231000218 dimer interface [polypeptide binding]; other site 561231000219 conserved gate region; other site 561231000220 putative PBP binding loops; other site 561231000221 ABC-ATPase subunit interface; other site 561231000222 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 561231000223 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231000224 Walker A/P-loop; other site 561231000225 ATP binding site [chemical binding]; other site 561231000226 Q-loop/lid; other site 561231000227 ABC transporter signature motif; other site 561231000228 Walker B; other site 561231000229 D-loop; other site 561231000230 H-loop/switch region; other site 561231000231 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 561231000232 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 561231000233 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231000234 Walker A/P-loop; other site 561231000235 ATP binding site [chemical binding]; other site 561231000236 Q-loop/lid; other site 561231000237 ABC transporter signature motif; other site 561231000238 Walker B; other site 561231000239 D-loop; other site 561231000240 H-loop/switch region; other site 561231000241 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 561231000242 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 561231000243 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561231000244 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 561231000245 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 561231000246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231000247 homodimer interface [polypeptide binding]; other site 561231000248 catalytic residue [active] 561231000249 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 561231000250 active site 561231000251 catalytic residues [active] 561231000252 altronate oxidoreductase; Provisional; Region: PRK03643 561231000253 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561231000254 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561231000255 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 561231000256 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 561231000257 putative NAD(P) binding site [chemical binding]; other site 561231000258 catalytic Zn binding site [ion binding]; other site 561231000259 structural Zn binding site [ion binding]; other site 561231000260 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231000261 DNA-binding site [nucleotide binding]; DNA binding site 561231000262 Transcriptional regulators [Transcription]; Region: GntR; COG1802 561231000263 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 561231000264 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 561231000265 D-galactonate transporter; Region: 2A0114; TIGR00893 561231000266 putative substrate translocation pore; other site 561231000267 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 561231000268 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 561231000269 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 561231000270 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 561231000271 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 561231000272 binding surface 561231000273 TPR motif; other site 561231000274 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 561231000275 binding surface 561231000276 TPR motif; other site 561231000277 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 561231000278 endo-1,4-D-glucanase; Provisional; Region: PRK11097 561231000279 cellulose synthase regulator protein; Provisional; Region: PRK11114 561231000280 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 561231000281 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 561231000282 DXD motif; other site 561231000283 PilZ domain; Region: PilZ; pfam07238 561231000284 YhjQ protein; Region: YhjQ; pfam06564 561231000285 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 561231000286 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 561231000287 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 561231000288 celllulose biosynthesis operon protein BcsF/YhjT; Region: cellullose_BcsF; TIGR03493 561231000289 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 561231000290 putative diguanylate cyclase; Provisional; Region: PRK13561 561231000291 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231000292 metal binding site [ion binding]; metal-binding site 561231000293 active site 561231000294 I-site; other site 561231000295 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 561231000296 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561231000297 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 561231000298 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 561231000299 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561231000300 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561231000301 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 561231000302 substrate binding site [chemical binding]; other site 561231000303 ATP binding site [chemical binding]; other site 561231000304 inner membrane protein YhjD; Region: TIGR00766 561231000305 major facilitator superfamily transporter; Provisional; Region: PRK05122 561231000306 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 561231000307 putative substrate translocation pore; other site 561231000308 hypothetical protein; Provisional; Region: PRK11615 561231000309 hypothetical protein; Provisional; Region: PRK11212 561231000310 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 561231000311 CPxP motif; other site 561231000312 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 561231000313 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 561231000314 metal-binding site [ion binding] 561231000315 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 561231000316 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561231000317 Predicted membrane protein [Function unknown]; Region: COG3714 561231000318 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 561231000319 hypothetical protein; Provisional; Region: PRK10910 561231000320 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 561231000321 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 561231000322 S-adenosylmethionine binding site [chemical binding]; other site 561231000323 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 561231000324 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 561231000325 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 561231000326 P loop; other site 561231000327 GTP binding site [chemical binding]; other site 561231000328 cell division protein FtsE; Provisional; Region: PRK10908 561231000329 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231000330 Walker A/P-loop; other site 561231000331 ATP binding site [chemical binding]; other site 561231000332 Q-loop/lid; other site 561231000333 ABC transporter signature motif; other site 561231000334 Walker B; other site 561231000335 D-loop; other site 561231000336 H-loop/switch region; other site 561231000337 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 561231000338 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 561231000339 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 561231000340 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561231000341 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 561231000342 DNA binding residues [nucleotide binding] 561231000343 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231000344 Coenzyme A binding pocket [chemical binding]; other site 561231000345 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 561231000346 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 561231000347 dimerization interface [polypeptide binding]; other site 561231000348 ligand binding site [chemical binding]; other site 561231000349 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231000350 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 561231000351 TM-ABC transporter signature motif; other site 561231000352 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 561231000353 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 561231000354 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 561231000355 TM-ABC transporter signature motif; other site 561231000356 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 561231000357 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 561231000358 Walker A/P-loop; other site 561231000359 ATP binding site [chemical binding]; other site 561231000360 Q-loop/lid; other site 561231000361 ABC transporter signature motif; other site 561231000362 Walker B; other site 561231000363 D-loop; other site 561231000364 H-loop/switch region; other site 561231000365 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 561231000366 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 561231000367 Walker A/P-loop; other site 561231000368 ATP binding site [chemical binding]; other site 561231000369 Q-loop/lid; other site 561231000370 ABC transporter signature motif; other site 561231000371 Walker B; other site 561231000372 D-loop; other site 561231000373 H-loop/switch region; other site 561231000374 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 561231000375 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 561231000376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231000377 homodimer interface [polypeptide binding]; other site 561231000378 catalytic residue [active] 561231000379 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231000380 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231000381 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231000382 dimer interface [polypeptide binding]; other site 561231000383 putative CheW interface [polypeptide binding]; other site 561231000384 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231000385 HAMP domain; Region: HAMP; pfam00672 561231000386 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231000387 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231000388 dimer interface [polypeptide binding]; other site 561231000389 putative CheW interface [polypeptide binding]; other site 561231000390 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231000391 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231000392 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231000393 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231000394 dimer interface [polypeptide binding]; other site 561231000395 putative CheW interface [polypeptide binding]; other site 561231000396 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231000397 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231000398 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231000399 dimer interface [polypeptide binding]; other site 561231000400 putative CheW interface [polypeptide binding]; other site 561231000401 putative transporter; Provisional; Region: PRK09821 561231000402 GntP family permease; Region: GntP_permease; pfam02447 561231000403 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 561231000404 putative aldolase; Validated; Region: PRK08130 561231000405 intersubunit interface [polypeptide binding]; other site 561231000406 active site 561231000407 Zn2+ binding site [ion binding]; other site 561231000408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 561231000409 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 561231000410 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 561231000411 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561231000412 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231000413 DNA-binding site [nucleotide binding]; DNA binding site 561231000414 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561231000415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 561231000416 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 561231000417 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 561231000418 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 561231000419 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561231000420 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 561231000421 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 561231000422 dimer interface [polypeptide binding]; other site 561231000423 conserved gate region; other site 561231000424 putative PBP binding loops; other site 561231000425 ABC-ATPase subunit interface; other site 561231000426 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561231000427 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 561231000428 dimer interface [polypeptide binding]; other site 561231000429 conserved gate region; other site 561231000430 putative PBP binding loops; other site 561231000431 ABC-ATPase subunit interface; other site 561231000432 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561231000433 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561231000434 Walker A/P-loop; other site 561231000435 ATP binding site [chemical binding]; other site 561231000436 Q-loop/lid; other site 561231000437 ABC transporter signature motif; other site 561231000438 Walker B; other site 561231000439 D-loop; other site 561231000440 H-loop/switch region; other site 561231000441 TOBE domain; Region: TOBE_2; pfam08402 561231000442 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 561231000443 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 561231000444 putative active site [active] 561231000445 catalytic site [active] 561231000446 putative metal binding site [ion binding]; other site 561231000447 Predicted permeases [General function prediction only]; Region: COG0679 561231000448 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 561231000449 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 561231000450 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 561231000451 two-component sensor protein; Provisional; Region: cpxA; PRK09470 561231000452 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 561231000453 dimerization interface [polypeptide binding]; other site 561231000454 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 561231000455 dimer interface [polypeptide binding]; other site 561231000456 phosphorylation site [posttranslational modification] 561231000457 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 561231000458 ATP binding site [chemical binding]; other site 561231000459 Mg2+ binding site [ion binding]; other site 561231000460 G-X-G motif; other site 561231000461 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 561231000462 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 561231000463 active site 561231000464 phosphorylation site [posttranslational modification] 561231000465 intermolecular recognition site; other site 561231000466 dimerization interface [polypeptide binding]; other site 561231000467 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 561231000468 DNA binding site [nucleotide binding] 561231000469 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 561231000470 dimer interface [polypeptide binding]; other site 561231000471 HEAT repeats; Region: HEAT_2; pfam13646 561231000472 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 561231000473 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 561231000474 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 561231000475 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 561231000476 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 561231000477 metal ion-dependent adhesion site (MIDAS); other site 561231000478 SWIM zinc finger; Region: SWIM; pfam04434 561231000479 putative arabinose transporter; Provisional; Region: PRK03545 561231000480 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 561231000481 putative substrate translocation pore; other site 561231000482 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 561231000483 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 561231000484 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 561231000485 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 561231000486 active site 561231000487 ADP/pyrophosphate binding site [chemical binding]; other site 561231000488 dimerization interface [polypeptide binding]; other site 561231000489 allosteric effector site; other site 561231000490 fructose-1,6-bisphosphate binding site; other site 561231000491 putative transposase OrfB; Reviewed; Region: PHA02517 561231000492 HTH-like domain; Region: HTH_21; pfam13276 561231000493 Integrase core domain; Region: rve; pfam00665 561231000494 Integrase core domain; Region: rve_3; pfam13683 561231000495 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 561231000496 Transposase; Region: HTH_Tnp_1; pfam01527 561231000497 RHS Repeat; Region: RHS_repeat; cl11982 561231000498 RHS Repeat; Region: RHS_repeat; cl11982 561231000499 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561231000500 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 561231000501 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 561231000502 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 561231000503 putative active site; other site 561231000504 catalytic triad [active] 561231000505 putative dimer interface [polypeptide binding]; other site 561231000506 agmatine deiminase; Provisional; Region: PRK13551 561231000507 agmatine deiminase; Region: agmatine_aguA; TIGR03380 561231000508 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 561231000509 triosephosphate isomerase; Provisional; Region: PRK14567 561231000510 substrate binding site [chemical binding]; other site 561231000511 dimer interface [polypeptide binding]; other site 561231000512 catalytic triad [active] 561231000513 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 561231000514 Predicted membrane protein [Function unknown]; Region: COG3152 561231000515 ferredoxin-NADP reductase; Provisional; Region: PRK10926 561231000516 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 561231000517 FAD binding pocket [chemical binding]; other site 561231000518 FAD binding motif [chemical binding]; other site 561231000519 phosphate binding motif [ion binding]; other site 561231000520 beta-alpha-beta structure motif; other site 561231000521 NAD binding pocket [chemical binding]; other site 561231000522 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 561231000523 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 561231000524 putative active site [active] 561231000525 glycerol kinase; Provisional; Region: glpK; PRK00047 561231000526 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 561231000527 N- and C-terminal domain interface [polypeptide binding]; other site 561231000528 active site 561231000529 MgATP binding site [chemical binding]; other site 561231000530 catalytic site [active] 561231000531 metal binding site [ion binding]; metal-binding site 561231000532 glycerol binding site [chemical binding]; other site 561231000533 homotetramer interface [polypeptide binding]; other site 561231000534 homodimer interface [polypeptide binding]; other site 561231000535 FBP binding site [chemical binding]; other site 561231000536 protein IIAGlc interface [polypeptide binding]; other site 561231000537 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 561231000538 amphipathic channel; other site 561231000539 Asn-Pro-Ala signature motifs; other site 561231000540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 561231000541 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 561231000542 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 561231000543 UbiA prenyltransferase family; Region: UbiA; pfam01040 561231000544 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 561231000545 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 561231000546 Walker A motif; other site 561231000547 ATP binding site [chemical binding]; other site 561231000548 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 561231000549 Walker B motif; other site 561231000550 arginine finger; other site 561231000551 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 561231000552 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 561231000553 active site 561231000554 HslU subunit interaction site [polypeptide binding]; other site 561231000555 essential cell division protein FtsN; Provisional; Region: PRK10927 561231000556 cell division protein FtsN; Provisional; Region: PRK12757 561231000557 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231000558 DNA binding site [nucleotide binding] 561231000559 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 561231000560 domain linker motif; other site 561231000561 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 561231000562 dimerization interface [polypeptide binding]; other site 561231000563 ligand binding site [chemical binding]; other site 561231000564 primosome assembly protein PriA; Validated; Region: PRK05580 561231000565 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 561231000566 ATP binding site [chemical binding]; other site 561231000567 putative Mg++ binding site [ion binding]; other site 561231000568 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; cl17351 561231000569 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 561231000570 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561231000571 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 561231000572 ABC-ATPase subunit interface; other site 561231000573 dimer interface [polypeptide binding]; other site 561231000574 putative PBP binding regions; other site 561231000575 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 561231000576 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 561231000577 putative ligand binding residues [chemical binding]; other site 561231000578 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561231000579 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561231000580 Walker A/P-loop; other site 561231000581 ATP binding site [chemical binding]; other site 561231000582 Q-loop/lid; other site 561231000583 ABC transporter signature motif; other site 561231000584 Walker B; other site 561231000585 D-loop; other site 561231000586 H-loop/switch region; other site 561231000587 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 561231000588 dimerization interface [polypeptide binding]; other site 561231000589 DNA binding site [nucleotide binding] 561231000590 corepressor binding sites; other site 561231000591 cystathionine gamma-synthase; Provisional; Region: PRK08045 561231000592 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 561231000593 homodimer interface [polypeptide binding]; other site 561231000594 substrate-cofactor binding pocket; other site 561231000595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231000596 catalytic residue [active] 561231000597 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 561231000598 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 561231000599 putative catalytic residues [active] 561231000600 putative nucleotide binding site [chemical binding]; other site 561231000601 putative aspartate binding site [chemical binding]; other site 561231000602 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 561231000603 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 561231000604 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 561231000605 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 561231000606 FAD binding site [chemical binding]; other site 561231000607 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 561231000608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231000609 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 561231000610 dimerization interface [polypeptide binding]; other site 561231000611 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 561231000612 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231000613 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 561231000614 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 561231000615 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231000616 hypothetical protein; Provisional; Region: PRK11056 561231000617 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 561231000618 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 561231000619 S-adenosylmethionine binding site [chemical binding]; other site 561231000620 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 561231000621 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 561231000622 N-terminal plug; other site 561231000623 ligand-binding site [chemical binding]; other site 561231000624 glutamate racemase; Provisional; Region: PRK00865 561231000625 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 561231000626 FAD binding domain; Region: FAD_binding_4; pfam01565 561231000627 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 561231000628 Biotin operon repressor [Transcription]; Region: BirA; COG1654 561231000629 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 561231000630 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 561231000631 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 561231000632 pantothenate kinase; Provisional; Region: PRK05439 561231000633 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 561231000634 ATP-binding site [chemical binding]; other site 561231000635 CoA-binding site [chemical binding]; other site 561231000636 Mg2+-binding site [ion binding]; other site 561231000637 elongation factor Tu; Reviewed; Region: PRK00049 561231000638 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 561231000639 G1 box; other site 561231000640 GEF interaction site [polypeptide binding]; other site 561231000641 GTP/Mg2+ binding site [chemical binding]; other site 561231000642 Switch I region; other site 561231000643 G2 box; other site 561231000644 G3 box; other site 561231000645 Switch II region; other site 561231000646 G4 box; other site 561231000647 G5 box; other site 561231000648 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 561231000649 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 561231000650 Antibiotic Binding Site [chemical binding]; other site 561231000651 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 561231000652 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 561231000653 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 561231000654 putative homodimer interface [polypeptide binding]; other site 561231000655 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 561231000656 heterodimer interface [polypeptide binding]; other site 561231000657 homodimer interface [polypeptide binding]; other site 561231000658 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 561231000659 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 561231000660 23S rRNA interface [nucleotide binding]; other site 561231000661 L7/L12 interface [polypeptide binding]; other site 561231000662 putative thiostrepton binding site; other site 561231000663 L25 interface [polypeptide binding]; other site 561231000664 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 561231000665 mRNA/rRNA interface [nucleotide binding]; other site 561231000666 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 561231000667 23S rRNA interface [nucleotide binding]; other site 561231000668 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 561231000669 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 561231000670 core dimer interface [polypeptide binding]; other site 561231000671 peripheral dimer interface [polypeptide binding]; other site 561231000672 L10 interface [polypeptide binding]; other site 561231000673 L11 interface [polypeptide binding]; other site 561231000674 putative EF-Tu interaction site [polypeptide binding]; other site 561231000675 putative EF-G interaction site [polypeptide binding]; other site 561231000676 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 561231000677 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 561231000678 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 561231000679 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 561231000680 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 561231000681 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 561231000682 RPB3 interaction site [polypeptide binding]; other site 561231000683 RPB1 interaction site [polypeptide binding]; other site 561231000684 RPB11 interaction site [polypeptide binding]; other site 561231000685 RPB10 interaction site [polypeptide binding]; other site 561231000686 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 561231000687 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 561231000688 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 561231000689 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 561231000690 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 561231000691 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 561231000692 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 561231000693 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 561231000694 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 561231000695 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 561231000696 DNA binding site [nucleotide binding] 561231000697 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 561231000698 shikimate transporter; Provisional; Region: PRK09952 561231000699 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 561231000700 putative substrate translocation pore; other site 561231000701 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 561231000702 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 561231000703 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231000704 DNA-binding site [nucleotide binding]; DNA binding site 561231000705 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 561231000706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231000707 homodimer interface [polypeptide binding]; other site 561231000708 catalytic residue [active] 561231000709 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 561231000710 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 561231000711 FeS/SAM binding site; other site 561231000712 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 561231000713 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 561231000714 ThiS interaction site; other site 561231000715 putative active site [active] 561231000716 tetramer interface [polypeptide binding]; other site 561231000717 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 561231000718 thiS-thiF/thiG interaction site; other site 561231000719 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 561231000720 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 561231000721 ATP binding site [chemical binding]; other site 561231000722 substrate interface [chemical binding]; other site 561231000723 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 561231000724 thiamine phosphate binding site [chemical binding]; other site 561231000725 active site 561231000726 pyrophosphate binding site [ion binding]; other site 561231000727 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 561231000728 ThiC-associated domain; Region: ThiC-associated; pfam13667 561231000729 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 561231000730 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 561231000731 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 561231000732 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 561231000733 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 561231000734 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 561231000735 putative NADH binding site [chemical binding]; other site 561231000736 putative active site [active] 561231000737 nudix motif; other site 561231000738 putative metal binding site [ion binding]; other site 561231000739 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 561231000740 substrate binding site [chemical binding]; other site 561231000741 active site 561231000742 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 561231000743 Active_site [active] 561231000744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 561231000745 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 561231000746 IHF dimer interface [polypeptide binding]; other site 561231000747 IHF - DNA interface [nucleotide binding]; other site 561231000748 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 561231000749 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 561231000750 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 561231000751 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 561231000752 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 561231000753 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 561231000754 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 561231000755 purine monophosphate binding site [chemical binding]; other site 561231000756 dimer interface [polypeptide binding]; other site 561231000757 putative catalytic residues [active] 561231000758 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 561231000759 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 561231000760 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561231000761 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561231000762 Walker A/P-loop; other site 561231000763 ATP binding site [chemical binding]; other site 561231000764 Q-loop/lid; other site 561231000765 ABC transporter signature motif; other site 561231000766 Walker B; other site 561231000767 D-loop; other site 561231000768 H-loop/switch region; other site 561231000769 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 561231000770 dimer interface [polypeptide binding]; other site 561231000771 conserved gate region; other site 561231000772 putative PBP binding loops; other site 561231000773 ABC-ATPase subunit interface; other site 561231000774 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 561231000775 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 561231000776 conserved gate region; other site 561231000777 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 561231000778 dimer interface [polypeptide binding]; other site 561231000779 ABC-ATPase subunit interface; other site 561231000780 putative PBP binding loops; other site 561231000781 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 561231000782 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231000783 substrate binding pocket [chemical binding]; other site 561231000784 membrane-bound complex binding site; other site 561231000785 hinge residues; other site 561231000786 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231000787 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 561231000788 dimer interface [polypeptide binding]; other site 561231000789 conserved gate region; other site 561231000790 putative PBP binding loops; other site 561231000791 ABC-ATPase subunit interface; other site 561231000792 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561231000793 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231000794 substrate binding pocket [chemical binding]; other site 561231000795 membrane-bound complex binding site; other site 561231000796 hinge residues; other site 561231000797 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 561231000798 putative catalytic site [active] 561231000799 putative phosphate binding site [ion binding]; other site 561231000800 putative metal binding site [ion binding]; other site 561231000801 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 561231000802 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 561231000803 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 561231000804 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 561231000805 FMN binding site [chemical binding]; other site 561231000806 active site 561231000807 catalytic residues [active] 561231000808 substrate binding site [chemical binding]; other site 561231000809 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 561231000810 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 561231000811 active site 561231000812 zinc binding site [ion binding]; other site 561231000813 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 561231000814 Methyltransferase domain; Region: Methyltransf_18; pfam12847 561231000815 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 561231000816 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 561231000817 Na binding site [ion binding]; other site 561231000818 hypothetical protein; Provisional; Region: PRK10633 561231000819 molybdenum-pterin binding domain; Region: Mop; TIGR00638 561231000820 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 561231000821 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 561231000822 putative metal binding site [ion binding]; other site 561231000823 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 561231000824 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561231000825 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 561231000826 ABC-ATPase subunit interface; other site 561231000827 dimer interface [polypeptide binding]; other site 561231000828 putative PBP binding regions; other site 561231000829 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561231000830 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561231000831 Walker A/P-loop; other site 561231000832 ATP binding site [chemical binding]; other site 561231000833 Q-loop/lid; other site 561231000834 ABC transporter signature motif; other site 561231000835 Walker B; other site 561231000836 D-loop; other site 561231000837 H-loop/switch region; other site 561231000838 Methyltransferase domain; Region: Methyltransf_31; pfam13847 561231000839 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 561231000840 S-adenosylmethionine binding site [chemical binding]; other site 561231000841 molybdenum transport protein ModD; Provisional; Region: PRK06096 561231000842 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 561231000843 dimerization interface [polypeptide binding]; other site 561231000844 active site 561231000845 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 561231000846 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 561231000847 N-terminal plug; other site 561231000848 ligand-binding site [chemical binding]; other site 561231000849 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 561231000850 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561231000851 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 561231000852 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 561231000853 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 561231000854 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 561231000855 carboxyltransferase (CT) interaction site; other site 561231000856 biotinylation site [posttranslational modification]; other site 561231000857 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 561231000858 Dehydroquinase class II; Region: DHquinase_II; pfam01220 561231000859 active site 561231000860 trimer interface [polypeptide binding]; other site 561231000861 dimer interface [polypeptide binding]; other site 561231000862 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 561231000863 TMAO/DMSO reductase; Reviewed; Region: PRK05363 561231000864 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 561231000865 Moco binding site; other site 561231000866 metal coordination site [ion binding]; other site 561231000867 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 561231000868 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 561231000869 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 561231000870 NADP binding site [chemical binding]; other site 561231000871 dimer interface [polypeptide binding]; other site 561231000872 regulatory protein CsrD; Provisional; Region: PRK11059 561231000873 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231000874 metal binding site [ion binding]; metal-binding site 561231000875 active site 561231000876 I-site; other site 561231000877 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 561231000878 rod shape-determining protein MreC; Region: mreC; TIGR00219 561231000879 rod shape-determining protein MreC; Region: MreC; pfam04085 561231000880 rod shape-determining protein MreD; Provisional; Region: PRK11060 561231000881 Maf-like protein; Region: Maf; pfam02545 561231000882 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 561231000883 active site 561231000884 dimer interface [polypeptide binding]; other site 561231000885 ribonuclease G; Provisional; Region: PRK11712 561231000886 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 561231000887 homodimer interface [polypeptide binding]; other site 561231000888 oligonucleotide binding site [chemical binding]; other site 561231000889 hypothetical protein; Provisional; Region: PRK10899 561231000890 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 561231000891 protease TldD; Provisional; Region: tldD; PRK10735 561231000892 transcriptional regulator; Provisional; Region: PRK10632 561231000893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231000894 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561231000895 putative effector binding pocket; other site 561231000896 dimerization interface [polypeptide binding]; other site 561231000897 efflux system membrane protein; Provisional; Region: PRK11594 561231000898 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 561231000899 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231000900 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231000901 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 561231000902 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 561231000903 hypothetical protein; Provisional; Region: PRK05255 561231000904 peptidase PmbA; Provisional; Region: PRK11040 561231000905 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 561231000906 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 561231000907 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 561231000908 dimerization domain swap beta strand [polypeptide binding]; other site 561231000909 regulatory protein interface [polypeptide binding]; other site 561231000910 active site 561231000911 regulatory phosphorylation site [posttranslational modification]; other site 561231000912 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 561231000913 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561231000914 active site 561231000915 phosphorylation site [posttranslational modification] 561231000916 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 561231000917 30S subunit binding site; other site 561231000918 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 561231000919 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 561231000920 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 561231000921 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 561231000922 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 561231000923 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 561231000924 Walker A/P-loop; other site 561231000925 ATP binding site [chemical binding]; other site 561231000926 Q-loop/lid; other site 561231000927 ABC transporter signature motif; other site 561231000928 Walker B; other site 561231000929 D-loop; other site 561231000930 H-loop/switch region; other site 561231000931 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 561231000932 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 561231000933 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 561231000934 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 561231000935 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 561231000936 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 561231000937 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 561231000938 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 561231000939 putative active site [active] 561231000940 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 561231000941 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 561231000942 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 561231000943 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 561231000944 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 561231000945 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 561231000946 Walker A/P-loop; other site 561231000947 ATP binding site [chemical binding]; other site 561231000948 Q-loop/lid; other site 561231000949 ABC transporter signature motif; other site 561231000950 Walker B; other site 561231000951 D-loop; other site 561231000952 H-loop/switch region; other site 561231000953 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 561231000954 conserved hypothetical integral membrane protein; Region: TIGR00056 561231000955 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 561231000956 mce related protein; Region: MCE; pfam02470 561231000957 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 561231000958 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 561231000959 anti sigma factor interaction site; other site 561231000960 regulatory phosphorylation site [posttranslational modification]; other site 561231000961 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 561231000962 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 561231000963 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 561231000964 hinge; other site 561231000965 active site 561231000966 serine endoprotease; Provisional; Region: PRK10898 561231000967 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 561231000968 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 561231000969 protein binding site [polypeptide binding]; other site 561231000970 serine endoprotease; Provisional; Region: PRK10139 561231000971 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 561231000972 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 561231000973 protein binding site [polypeptide binding]; other site 561231000974 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 561231000975 hypothetical protein; Provisional; Region: PRK11677 561231000976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 561231000977 Predicted ATPase [General function prediction only]; Region: COG1485 561231000978 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 561231000979 23S rRNA interface [nucleotide binding]; other site 561231000980 L3 interface [polypeptide binding]; other site 561231000981 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 561231000982 stringent starvation protein A; Provisional; Region: sspA; PRK09481 561231000983 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 561231000984 C-terminal domain interface [polypeptide binding]; other site 561231000985 putative GSH binding site (G-site) [chemical binding]; other site 561231000986 dimer interface [polypeptide binding]; other site 561231000987 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 561231000988 dimer interface [polypeptide binding]; other site 561231000989 N-terminal domain interface [polypeptide binding]; other site 561231000990 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 561231000991 acetoin reductase; Validated; Region: PRK08643 561231000992 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 561231000993 NAD binding site [chemical binding]; other site 561231000994 homotetramer interface [polypeptide binding]; other site 561231000995 homodimer interface [polypeptide binding]; other site 561231000996 active site 561231000997 substrate binding site [chemical binding]; other site 561231000998 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 561231000999 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561231001000 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231001001 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 561231001002 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 561231001003 active site 561231001004 dimer interface [polypeptide binding]; other site 561231001005 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 561231001006 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 561231001007 active site 561231001008 FMN binding site [chemical binding]; other site 561231001009 substrate binding site [chemical binding]; other site 561231001010 3Fe-4S cluster binding site [ion binding]; other site 561231001011 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 561231001012 domain interface; other site 561231001013 radical SAM protein, TIGR01212 family; Region: TIGR01212 561231001014 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 561231001015 FeS/SAM binding site; other site 561231001016 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 561231001017 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 561231001018 putative active site [active] 561231001019 heme pocket [chemical binding]; other site 561231001020 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 561231001021 dimer interface [polypeptide binding]; other site 561231001022 phosphorylation site [posttranslational modification] 561231001023 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 561231001024 ATP binding site [chemical binding]; other site 561231001025 Mg2+ binding site [ion binding]; other site 561231001026 G-X-G motif; other site 561231001027 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 561231001028 active site 561231001029 phosphorylation site [posttranslational modification] 561231001030 intermolecular recognition site; other site 561231001031 dimerization interface [polypeptide binding]; other site 561231001032 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 561231001033 putative binding surface; other site 561231001034 active site 561231001035 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 561231001036 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 561231001037 conserved cys residue [active] 561231001038 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 561231001039 Transglycosylase; Region: Transgly; cl17702 561231001040 Alginate lyase; Region: Alginate_lyase; pfam05426 561231001041 outer membrane lipoprotein; Provisional; Region: PRK11023 561231001042 BON domain; Region: BON; pfam04972 561231001043 BON domain; Region: BON; pfam04972 561231001044 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 561231001045 dimer interface [polypeptide binding]; other site 561231001046 active site 561231001047 hypothetical protein; Reviewed; Region: PRK12497 561231001048 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 561231001049 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 561231001050 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 561231001051 putative ligand binding site [chemical binding]; other site 561231001052 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 561231001053 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 561231001054 putative SAM binding site [chemical binding]; other site 561231001055 putative homodimer interface [polypeptide binding]; other site 561231001056 primosomal protein DnaI; Provisional; Region: PRK02854 561231001057 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 561231001058 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 561231001059 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 561231001060 putative active site [active] 561231001061 metal binding site [ion binding]; metal-binding site 561231001062 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 561231001063 hypothetical protein; Provisional; Region: PRK11653 561231001064 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 561231001065 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 561231001066 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 561231001067 dimer interface [polypeptide binding]; other site 561231001068 ADP-ribose binding site [chemical binding]; other site 561231001069 active site 561231001070 nudix motif; other site 561231001071 metal binding site [ion binding]; metal-binding site 561231001072 putative dehydrogenase; Provisional; Region: PRK11039 561231001073 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 561231001074 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561231001075 active site 561231001076 metal binding site [ion binding]; metal-binding site 561231001077 hexamer interface [polypeptide binding]; other site 561231001078 esterase YqiA; Provisional; Region: PRK11071 561231001079 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561231001080 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 561231001081 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 561231001082 ATP binding site [chemical binding]; other site 561231001083 Mg2+ binding site [ion binding]; other site 561231001084 G-X-G motif; other site 561231001085 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 561231001086 anchoring element; other site 561231001087 dimer interface [polypeptide binding]; other site 561231001088 ATP binding site [chemical binding]; other site 561231001089 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 561231001090 active site 561231001091 metal binding site [ion binding]; metal-binding site 561231001092 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 561231001093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231001094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231001095 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 561231001096 dimerization interface [polypeptide binding]; other site 561231001097 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 561231001098 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 561231001099 intersubunit interface [polypeptide binding]; other site 561231001100 active site 561231001101 zinc binding site [ion binding]; other site 561231001102 Na+ binding site [ion binding]; other site 561231001103 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 561231001104 intersubunit interface [polypeptide binding]; other site 561231001105 active site 561231001106 zinc binding site [ion binding]; other site 561231001107 Na+ binding site [ion binding]; other site 561231001108 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 561231001109 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 561231001110 active site 561231001111 P-loop; other site 561231001112 phosphorylation site [posttranslational modification] 561231001113 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561231001114 active site 561231001115 phosphorylation site [posttranslational modification] 561231001116 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 561231001117 HTH domain; Region: HTH_11; pfam08279 561231001118 Mga helix-turn-helix domain; Region: Mga; pfam05043 561231001119 PRD domain; Region: PRD; pfam00874 561231001120 PRD domain; Region: PRD; pfam00874 561231001121 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 561231001122 active site 561231001123 P-loop; other site 561231001124 phosphorylation site [posttranslational modification] 561231001125 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 561231001126 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 561231001127 N-terminal plug; other site 561231001128 ligand-binding site [chemical binding]; other site 561231001129 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 561231001130 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 561231001131 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 561231001132 CAP-like domain; other site 561231001133 active site 561231001134 primary dimer interface [polypeptide binding]; other site 561231001135 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 561231001136 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 561231001137 putative acyl-acceptor binding pocket; other site 561231001138 FtsI repressor; Provisional; Region: PRK10883 561231001139 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 561231001140 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 561231001141 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 561231001142 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231001143 DNA-binding site [nucleotide binding]; DNA binding site 561231001144 UTRA domain; Region: UTRA; pfam07702 561231001145 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 561231001146 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561231001147 active site 561231001148 catalytic tetrad [active] 561231001149 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561231001150 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561231001151 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561231001152 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561231001153 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 561231001154 PAAR motif; Region: PAAR_motif; pfam05488 561231001155 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561231001156 RHS Repeat; Region: RHS_repeat; pfam05593 561231001157 RHS Repeat; Region: RHS_repeat; pfam05593 561231001158 RHS Repeat; Region: RHS_repeat; cl11982 561231001159 RHS protein; Region: RHS; pfam03527 561231001160 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561231001161 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561231001162 RHS protein; Region: RHS; pfam03527 561231001163 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561231001164 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 561231001165 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 561231001166 sequence-specific DNA binding site [nucleotide binding]; other site 561231001167 salt bridge; other site 561231001168 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561231001169 RHS protein; Region: RHS; pfam03527 561231001170 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561231001171 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 561231001172 active site 561231001173 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 561231001174 RNAase interaction site [polypeptide binding]; other site 561231001175 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561231001176 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 561231001177 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 561231001178 binding surface 561231001179 TPR motif; other site 561231001180 Transposase; Region: HTH_Tnp_1; pfam01527 561231001181 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 561231001182 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 561231001183 dimer interface [polypeptide binding]; other site 561231001184 active site 561231001185 metal binding site [ion binding]; metal-binding site 561231001186 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 561231001187 dimer interface [polypeptide binding]; other site 561231001188 FMN binding site [chemical binding]; other site 561231001189 NADPH bind site [chemical binding]; other site 561231001190 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 561231001191 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 561231001192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231001193 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 561231001194 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561231001195 cystathionine beta-lyase; Provisional; Region: PRK08114 561231001196 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 561231001197 homodimer interface [polypeptide binding]; other site 561231001198 substrate-cofactor binding pocket; other site 561231001199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231001200 catalytic residue [active] 561231001201 DctM-like transporters; Region: DctM; pfam06808 561231001202 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 561231001203 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 561231001204 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 561231001205 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 561231001206 biopolymer transport protein ExbB; Provisional; Region: PRK10414 561231001207 biopolymer transport protein ExbD; Provisional; Region: PRK11267 561231001208 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 561231001209 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 561231001210 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 561231001211 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231001212 DNA binding site [nucleotide binding] 561231001213 domain linker motif; other site 561231001214 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 561231001215 dimerization interface [polypeptide binding]; other site 561231001216 ligand binding site [chemical binding]; other site 561231001217 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 561231001218 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 561231001219 substrate binding [chemical binding]; other site 561231001220 active site 561231001221 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 561231001222 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 561231001223 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561231001224 active site turn [active] 561231001225 phosphorylation site [posttranslational modification] 561231001226 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561231001227 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 561231001228 trimer interface; other site 561231001229 sugar binding site [chemical binding]; other site 561231001230 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561231001231 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 561231001232 putative substrate binding site [chemical binding]; other site 561231001233 putative ATP binding site [chemical binding]; other site 561231001234 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 561231001235 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 561231001236 helicase Cas3; Provisional; Region: PRK09694 561231001237 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 561231001238 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 561231001239 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 561231001240 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 561231001241 CT1975-like protein; Region: Cas_CT1975; pfam09344 561231001242 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 561231001243 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 561231001244 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 561231001245 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 561231001246 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 561231001247 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 561231001248 salt bridge; other site 561231001249 non-specific DNA binding site [nucleotide binding]; other site 561231001250 sequence-specific DNA binding site [nucleotide binding]; other site 561231001251 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 561231001252 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 561231001253 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 561231001254 non-specific DNA binding site [nucleotide binding]; other site 561231001255 salt bridge; other site 561231001256 sequence-specific DNA binding site [nucleotide binding]; other site 561231001257 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 561231001258 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 561231001259 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561231001260 catalytic residue [active] 561231001261 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561231001262 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 561231001263 putative substrate translocation pore; other site 561231001264 Predicted transcriptional regulators [Transcription]; Region: COG1733 561231001265 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 561231001266 hypothetical protein; Provisional; Region: PRK03467 561231001267 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 561231001268 NADH(P)-binding; Region: NAD_binding_10; pfam13460 561231001269 NAD binding site [chemical binding]; other site 561231001270 active site 561231001271 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 561231001272 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 561231001273 FeS/SAM binding site; other site 561231001274 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 561231001275 ATP cone domain; Region: ATP-cone; pfam03477 561231001276 Class III ribonucleotide reductase; Region: RNR_III; cd01675 561231001277 effector binding site; other site 561231001278 active site 561231001279 Zn binding site [ion binding]; other site 561231001280 glycine loop; other site 561231001281 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 561231001282 homotrimer interaction site [polypeptide binding]; other site 561231001283 putative active site [active] 561231001284 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 561231001285 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 561231001286 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 561231001287 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 561231001288 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 561231001289 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 561231001290 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 561231001291 PAS fold; Region: PAS_4; pfam08448 561231001292 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 561231001293 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 561231001294 DNA binding residues [nucleotide binding] 561231001295 dimerization interface [polypeptide binding]; other site 561231001296 PAS fold; Region: PAS_4; pfam08448 561231001297 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 561231001298 DNA binding residues [nucleotide binding] 561231001299 dimerization interface [polypeptide binding]; other site 561231001300 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 561231001301 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 561231001302 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 561231001303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 561231001304 RNase E inhibitor protein; Provisional; Region: PRK11191 561231001305 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 561231001306 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231001307 Coenzyme A binding pocket [chemical binding]; other site 561231001308 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 561231001309 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 561231001310 hypothetical protein; Provisional; Region: PRK06489 561231001311 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 561231001312 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561231001313 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 561231001314 dimerization interface [polypeptide binding]; other site 561231001315 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231001316 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231001317 dimer interface [polypeptide binding]; other site 561231001318 putative CheW interface [polypeptide binding]; other site 561231001319 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 561231001320 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 561231001321 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 561231001322 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 561231001323 haemagglutination activity domain; Region: Haemagg_act; pfam05860 561231001324 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 561231001325 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561231001326 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561231001327 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561231001328 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 561231001329 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 561231001330 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 561231001331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231001332 Q-loop/lid; other site 561231001333 ABC transporter signature motif; other site 561231001334 Walker B; other site 561231001335 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561231001336 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 561231001337 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 561231001338 HIGH motif; other site 561231001339 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 561231001340 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 561231001341 active site 561231001342 KMSKS motif; other site 561231001343 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 561231001344 tRNA binding surface [nucleotide binding]; other site 561231001345 anticodon binding site; other site 561231001346 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 561231001347 DNA polymerase III subunit chi; Validated; Region: PRK05728 561231001348 multifunctional aminopeptidase A; Provisional; Region: PRK00913 561231001349 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 561231001350 interface (dimer of trimers) [polypeptide binding]; other site 561231001351 Substrate-binding/catalytic site; other site 561231001352 Zn-binding sites [ion binding]; other site 561231001353 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 561231001354 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 561231001355 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 561231001356 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 561231001357 integrase; Provisional; Region: PRK09692 561231001358 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231001359 active site 561231001360 Int/Topo IB signature motif; other site 561231001361 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 561231001362 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 561231001363 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 561231001364 HerA helicase [Replication, recombination, and repair]; Region: COG0433 561231001365 Domain of unknown function DUF87; Region: DUF87; pfam01935 561231001366 SIR2-like domain; Region: SIR2_2; pfam13289 561231001367 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 561231001368 DNA methylase; Region: N6_N4_Mtase; pfam01555 561231001369 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 561231001370 non-specific DNA binding site [nucleotide binding]; other site 561231001371 salt bridge; other site 561231001372 sequence-specific DNA binding site [nucleotide binding]; other site 561231001373 Restriction endonuclease PvuII; Region: Endonuc-PvuII; pfam09225 561231001374 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 561231001375 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 561231001376 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 561231001377 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 561231001378 FtsX-like permease family; Region: FtsX; pfam02687 561231001379 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561231001380 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 561231001381 Walker A/P-loop; other site 561231001382 ATP binding site [chemical binding]; other site 561231001383 Q-loop/lid; other site 561231001384 ABC transporter signature motif; other site 561231001385 Walker B; other site 561231001386 D-loop; other site 561231001387 H-loop/switch region; other site 561231001388 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 561231001389 metal ion-dependent adhesion site (MIDAS); other site 561231001390 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 561231001391 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 561231001392 Virulence factor SrfB; Region: SrfB; pfam07520 561231001393 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 561231001394 metal ion-dependent adhesion site (MIDAS); other site 561231001395 Uncharacterized conserved protein [Function unknown]; Region: COG2850 561231001396 Secretory lipase; Region: LIP; pfam03583 561231001397 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 561231001398 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 561231001399 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 561231001400 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 561231001401 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 561231001402 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231001403 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231001404 Outer membrane efflux protein; Region: OEP; pfam02321 561231001405 Outer membrane efflux protein; Region: OEP; pfam02321 561231001406 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561231001407 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 561231001408 Walker A/P-loop; other site 561231001409 ATP binding site [chemical binding]; other site 561231001410 Q-loop/lid; other site 561231001411 ABC transporter signature motif; other site 561231001412 Walker B; other site 561231001413 D-loop; other site 561231001414 H-loop/switch region; other site 561231001415 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 561231001416 Aspartase; Region: Aspartase; cd01357 561231001417 active sites [active] 561231001418 tetramer interface [polypeptide binding]; other site 561231001419 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231001420 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231001421 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 561231001422 dimerization interface [polypeptide binding]; other site 561231001423 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 561231001424 non-specific DNA binding site [nucleotide binding]; other site 561231001425 salt bridge; other site 561231001426 sequence-specific DNA binding site [nucleotide binding]; other site 561231001427 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 561231001428 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 561231001429 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 561231001430 Walker A motif; other site 561231001431 ATP binding site [chemical binding]; other site 561231001432 Walker B motif; other site 561231001433 arginine finger; other site 561231001434 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 561231001435 hypothetical protein; Reviewed; Region: PRK09588 561231001436 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 561231001437 HNH endonuclease; Region: HNH_2; pfam13391 561231001438 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 561231001439 Nitrate and nitrite sensing; Region: NIT; pfam08376 561231001440 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561231001441 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 561231001442 dimerization interface [polypeptide binding]; other site 561231001443 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231001444 dimer interface [polypeptide binding]; other site 561231001445 putative CheW interface [polypeptide binding]; other site 561231001446 magnesium-transporting ATPase; Provisional; Region: PRK15122 561231001447 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 561231001448 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 561231001449 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 561231001450 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 561231001451 Soluble P-type ATPase [General function prediction only]; Region: COG4087 561231001452 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 561231001453 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231001454 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231001455 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231001456 dimer interface [polypeptide binding]; other site 561231001457 putative CheW interface [polypeptide binding]; other site 561231001458 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 561231001459 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; cd00398 561231001460 intersubunit interface [polypeptide binding]; other site 561231001461 active site 561231001462 Zn2+ binding site [ion binding]; other site 561231001463 L-rhamnose isomerase; Provisional; Region: PRK01076 561231001464 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 561231001465 N- and C-terminal domain interface [polypeptide binding]; other site 561231001466 active site 561231001467 putative catalytic site [active] 561231001468 metal binding site [ion binding]; metal-binding site 561231001469 ATP binding site [chemical binding]; other site 561231001470 rhamnulokinase; Provisional; Region: rhaB; PRK10640 561231001471 carbohydrate binding site [chemical binding]; other site 561231001472 transcriptional activator RhaS; Provisional; Region: PRK13503 561231001473 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561231001474 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231001475 transcriptional activator RhaR; Provisional; Region: PRK13501 561231001476 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561231001477 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231001478 Predicted transcriptional regulator [Transcription]; Region: COG3905 561231001479 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 561231001480 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561231001481 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231001482 Walker A/P-loop; other site 561231001483 ATP binding site [chemical binding]; other site 561231001484 Q-loop/lid; other site 561231001485 ABC transporter signature motif; other site 561231001486 Walker B; other site 561231001487 D-loop; other site 561231001488 H-loop/switch region; other site 561231001489 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231001490 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231001491 Walker A/P-loop; other site 561231001492 ATP binding site [chemical binding]; other site 561231001493 Q-loop/lid; other site 561231001494 ABC transporter signature motif; other site 561231001495 Walker B; other site 561231001496 D-loop; other site 561231001497 H-loop/switch region; other site 561231001498 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231001499 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 561231001500 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 561231001501 dimer interface [polypeptide binding]; other site 561231001502 conserved gate region; other site 561231001503 putative PBP binding loops; other site 561231001504 ABC-ATPase subunit interface; other site 561231001505 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561231001506 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 561231001507 dimer interface [polypeptide binding]; other site 561231001508 conserved gate region; other site 561231001509 putative PBP binding loops; other site 561231001510 ABC-ATPase subunit interface; other site 561231001511 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561231001512 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 561231001513 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 561231001514 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 561231001515 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 561231001516 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 561231001517 hypothetical protein; Provisional; Region: PRK05208 561231001518 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 561231001519 Prostaglandin dehydrogenases; Region: PGDH; cd05288 561231001520 NAD(P) binding site [chemical binding]; other site 561231001521 substrate binding site [chemical binding]; other site 561231001522 dimer interface [polypeptide binding]; other site 561231001523 Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The...; Region: Piwi-like; cl00628 561231001524 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561231001525 RHS protein; Region: RHS; pfam03527 561231001526 PAAR motif; Region: PAAR_motif; pfam05488 561231001527 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561231001528 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 561231001529 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 561231001530 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 561231001531 oxidoreductase; Provisional; Region: PRK08013 561231001532 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 561231001533 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 561231001534 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 561231001535 proline aminopeptidase P II; Provisional; Region: PRK10879 561231001536 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 561231001537 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 561231001538 active site 561231001539 hypothetical protein; Reviewed; Region: PRK01736 561231001540 Z-ring-associated protein; Provisional; Region: PRK10972 561231001541 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 561231001542 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 561231001543 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 561231001544 non-specific DNA binding site [nucleotide binding]; other site 561231001545 salt bridge; other site 561231001546 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 561231001547 sequence-specific DNA binding site [nucleotide binding]; other site 561231001548 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 561231001549 active site 561231001550 (T/H)XGH motif; other site 561231001551 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 561231001552 DNA repair protein RadA; Region: sms; TIGR00416 561231001553 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 561231001554 Walker A motif/ATP binding site; other site 561231001555 ATP binding site [chemical binding]; other site 561231001556 Walker B motif; other site 561231001557 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 561231001558 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 561231001559 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 561231001560 motif I; other site 561231001561 motif II; other site 561231001562 hypothetical protein; Provisional; Region: PRK11246 561231001563 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 561231001564 non-specific DNA binding site [nucleotide binding]; other site 561231001565 salt bridge; other site 561231001566 sequence-specific DNA binding site [nucleotide binding]; other site 561231001567 HipA N-terminal domain; Region: Couple_hipA; pfam13657 561231001568 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 561231001569 HipA-like N-terminal domain; Region: HipA_N; pfam07805 561231001570 HipA-like C-terminal domain; Region: HipA_C; pfam07804 561231001571 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 561231001572 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 561231001573 G1 box; other site 561231001574 putative GEF interaction site [polypeptide binding]; other site 561231001575 GTP/Mg2+ binding site [chemical binding]; other site 561231001576 Switch I region; other site 561231001577 G2 box; other site 561231001578 G3 box; other site 561231001579 Switch II region; other site 561231001580 G4 box; other site 561231001581 G5 box; other site 561231001582 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 561231001583 periplasmic protein; Provisional; Region: PRK10568 561231001584 BON domain; Region: BON; pfam04972 561231001585 BON domain; Region: BON; pfam04972 561231001586 CsbD-like; Region: CsbD; cl17424 561231001587 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 561231001588 active site 561231001589 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 561231001590 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 561231001591 Nucleoside recognition; Region: Gate; pfam07670 561231001592 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 561231001593 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 561231001594 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 561231001595 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 561231001596 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 561231001597 N-terminal plug; other site 561231001598 ligand-binding site [chemical binding]; other site 561231001599 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 561231001600 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 561231001601 chorismate binding enzyme; Region: Chorismate_bind; cl10555 561231001602 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 561231001603 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 561231001604 acyl-activating enzyme (AAE) consensus motif; other site 561231001605 active site 561231001606 AMP binding site [chemical binding]; other site 561231001607 substrate binding site [chemical binding]; other site 561231001608 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 561231001609 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 561231001610 putative NAD(P) binding site [chemical binding]; other site 561231001611 active site 561231001612 Outer membrane efflux protein; Region: OEP; pfam02321 561231001613 Outer membrane efflux protein; Region: OEP; pfam02321 561231001614 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 561231001615 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001616 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001617 Ca2+ binding site [ion binding]; other site 561231001618 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001619 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001620 Ca2+ binding site [ion binding]; other site 561231001621 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001622 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001623 Ca2+ binding site [ion binding]; other site 561231001624 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001625 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001626 Ca2+ binding site [ion binding]; other site 561231001627 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001628 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001629 Ca2+ binding site [ion binding]; other site 561231001630 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001631 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001632 Ca2+ binding site [ion binding]; other site 561231001633 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001634 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001635 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001636 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001637 Ca2+ binding site [ion binding]; other site 561231001638 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001639 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001640 Ca2+ binding site [ion binding]; other site 561231001641 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001642 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001643 Ca2+ binding site [ion binding]; other site 561231001644 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001645 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001646 Ca2+ binding site [ion binding]; other site 561231001647 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231001648 Cadherin repeat-like domain; Region: CA_like; cl15786 561231001649 Ca2+ binding site [ion binding]; other site 561231001650 Phage Tail Collar Domain; Region: Collar; pfam07484 561231001651 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 561231001652 active site 561231001653 putative substrate binding region [chemical binding]; other site 561231001654 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 561231001655 carboxyltransferase (CT) interaction site; other site 561231001656 biotinylation site [posttranslational modification]; other site 561231001657 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231001658 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231001659 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231001660 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231001661 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231001662 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 561231001663 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 561231001664 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 561231001665 tetramer interface [polypeptide binding]; other site 561231001666 active site 561231001667 Mg2+/Mn2+ binding site [ion binding]; other site 561231001668 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561231001669 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 561231001670 PYR/PP interface [polypeptide binding]; other site 561231001671 dimer interface [polypeptide binding]; other site 561231001672 TPP binding site [chemical binding]; other site 561231001673 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 561231001674 TPP-binding site; other site 561231001675 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 561231001676 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 561231001677 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 561231001678 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 561231001679 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 561231001680 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 561231001681 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231001682 Walker A/P-loop; other site 561231001683 ATP binding site [chemical binding]; other site 561231001684 Q-loop/lid; other site 561231001685 ABC transporter signature motif; other site 561231001686 Walker B; other site 561231001687 D-loop; other site 561231001688 H-loop/switch region; other site 561231001689 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231001690 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 561231001691 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231001692 Walker A/P-loop; other site 561231001693 ATP binding site [chemical binding]; other site 561231001694 Q-loop/lid; other site 561231001695 ABC transporter signature motif; other site 561231001696 Walker B; other site 561231001697 D-loop; other site 561231001698 H-loop/switch region; other site 561231001699 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 561231001700 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 561231001701 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 561231001702 active site 561231001703 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 561231001704 Guanylate kinase; Region: Guanylate_kin; pfam00625 561231001705 active site 561231001706 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 561231001707 putative hydrolase; Provisional; Region: PRK02113 561231001708 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 561231001709 Bacterial sugar transferase; Region: Bac_transf; pfam02397 561231001710 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 561231001711 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 561231001712 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 561231001713 SLBB domain; Region: SLBB; pfam10531 561231001714 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 561231001715 Chain length determinant protein; Region: Wzz; pfam02706 561231001716 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 561231001717 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 561231001718 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 561231001719 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 561231001720 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 561231001721 active site 561231001722 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561231001723 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 561231001724 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 561231001725 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561231001726 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 561231001727 putative acyl transferase; Provisional; Region: PRK10191 561231001728 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 561231001729 trimer interface [polypeptide binding]; other site 561231001730 active site 561231001731 substrate binding site [chemical binding]; other site 561231001732 CoA binding site [chemical binding]; other site 561231001733 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; cl17196 561231001734 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 561231001735 ATP binding site [chemical binding]; other site 561231001736 substrate interface [chemical binding]; other site 561231001737 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 561231001738 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561231001739 putative substrate translocation pore; other site 561231001740 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 561231001741 S-adenosylmethionine binding site [chemical binding]; other site 561231001742 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 561231001743 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE; Region: PLPDE_III_MccE_like; cd06841 561231001744 dimer interface [polypeptide binding]; other site 561231001745 active site 561231001746 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561231001747 catalytic residues [active] 561231001748 substrate binding site [chemical binding]; other site 561231001749 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 561231001750 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 561231001751 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 561231001752 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 561231001753 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 561231001754 P-loop; other site 561231001755 Magnesium ion binding site [ion binding]; other site 561231001756 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 561231001757 replicative DNA helicase; Region: DnaB; TIGR00665 561231001758 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 561231001759 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 561231001760 Walker A motif; other site 561231001761 ATP binding site [chemical binding]; other site 561231001762 Walker B motif; other site 561231001763 DNA binding loops [nucleotide binding] 561231001764 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 561231001765 ParB-like nuclease domain; Region: ParBc; pfam02195 561231001766 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 561231001767 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 561231001768 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 561231001769 DNA topoisomerase III; Provisional; Region: PRK07726 561231001770 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 561231001771 active site 561231001772 putative interdomain interaction site [polypeptide binding]; other site 561231001773 putative metal-binding site [ion binding]; other site 561231001774 putative nucleotide binding site [chemical binding]; other site 561231001775 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 561231001776 domain I; other site 561231001777 DNA binding groove [nucleotide binding] 561231001778 phosphate binding site [ion binding]; other site 561231001779 domain II; other site 561231001780 domain III; other site 561231001781 nucleotide binding site [chemical binding]; other site 561231001782 catalytic site [active] 561231001783 domain IV; other site 561231001784 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561231001785 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 561231001786 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 561231001787 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 561231001788 dimer interface [polypeptide binding]; other site 561231001789 ssDNA binding site [nucleotide binding]; other site 561231001790 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561231001791 putative single-stranded DNA-binding protein; Region: PHA01740 561231001792 Domain of unknown function DUF29; Region: DUF29; pfam01724 561231001793 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 561231001794 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 561231001795 PilM; Region: PilM; pfam07419 561231001796 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 561231001797 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561231001798 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 561231001799 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 561231001800 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 561231001801 Type II/IV secretion system protein; Region: T2SE; pfam00437 561231001802 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 561231001803 Walker A motif; other site 561231001804 ATP binding site [chemical binding]; other site 561231001805 Walker B motif; other site 561231001806 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 561231001807 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561231001808 PilS N terminal; Region: PilS; pfam08805 561231001809 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 561231001810 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 561231001811 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561231001812 catalytic residue [active] 561231001813 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 561231001814 Phage Tail Collar Domain; Region: Collar; pfam07484 561231001815 Phage Tail Collar Domain; Region: Collar; pfam07484 561231001816 Phage Tail Collar Domain; Region: Collar; pfam07484 561231001817 Phage Tail Collar Domain; Region: Collar; pfam07484 561231001818 Phage Tail Collar Domain; Region: Collar; pfam07484 561231001819 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 561231001820 active site 561231001821 DNA binding site [nucleotide binding] 561231001822 Int/Topo IB signature motif; other site 561231001823 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 561231001824 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 561231001825 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561231001826 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 561231001827 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 561231001828 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 561231001829 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 561231001830 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561231001831 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561231001832 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561231001833 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561231001834 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 561231001835 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 561231001836 PAAR motif; Region: PAAR_motif; pfam05488 561231001837 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561231001838 RHS Repeat; Region: RHS_repeat; pfam05593 561231001839 RHS Repeat; Region: RHS_repeat; pfam05593 561231001840 RHS Repeat; Region: RHS_repeat; pfam05593 561231001841 RHS Repeat; Region: RHS_repeat; pfam05593 561231001842 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 561231001843 RHS Repeat; Region: RHS_repeat; cl11982 561231001844 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561231001845 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 561231001846 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 561231001847 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 561231001848 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 561231001849 conjugative transfer region protein, TIGR03750 family; Region: conj_TIGR03750 561231001850 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 561231001851 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 561231001852 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 561231001853 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 561231001854 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 561231001855 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 561231001856 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 561231001857 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 561231001858 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 561231001859 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 561231001860 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 561231001861 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 561231001862 synthetase active site [active] 561231001863 NTP binding site [chemical binding]; other site 561231001864 metal binding site [ion binding]; metal-binding site 561231001865 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 561231001866 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 561231001867 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231001868 ABC transporter signature motif; other site 561231001869 Walker B; other site 561231001870 D-loop; other site 561231001871 H-loop/switch region; other site 561231001872 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 561231001873 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 561231001874 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 561231001875 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 561231001876 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 561231001877 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 561231001878 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 561231001879 Integrase; Region: Integrase_1; pfam12835 561231001880 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 561231001881 hypothetical protein; Reviewed; Region: PRK00024 561231001882 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 561231001883 MPN+ (JAMM) motif; other site 561231001884 Zinc-binding site [ion binding]; other site 561231001885 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 561231001886 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 561231001887 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 561231001888 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 561231001889 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 561231001890 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 561231001891 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 561231001892 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 561231001893 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 561231001894 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 561231001895 active site 561231001896 catalytic residues [active] 561231001897 DNA binding site [nucleotide binding] 561231001898 Int/Topo IB signature motif; other site 561231001899 Fic family protein [Function unknown]; Region: COG3177 561231001900 Fic/DOC family; Region: Fic; pfam02661 561231001901 TIR domain; Region: TIR_2; pfam13676 561231001902 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 561231001903 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561231001904 integrase; Provisional; Region: PRK09692 561231001905 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231001906 active site 561231001907 Int/Topo IB signature motif; other site 561231001908 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561231001909 Helix-turn-helix domain; Region: HTH_18; pfam12833 561231001910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231001911 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561231001912 putative transcriptional regulator; Provisional; Region: PRK11640 561231001913 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231001914 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 561231001915 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 561231001916 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 561231001917 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 561231001918 DsbD alpha interface [polypeptide binding]; other site 561231001919 catalytic residues [active] 561231001920 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 561231001921 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 561231001922 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 561231001923 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 561231001924 Aspartase; Region: Aspartase; cd01357 561231001925 active sites [active] 561231001926 tetramer interface [polypeptide binding]; other site 561231001927 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 561231001928 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 561231001929 oligomerisation interface [polypeptide binding]; other site 561231001930 mobile loop; other site 561231001931 roof hairpin; other site 561231001932 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 561231001933 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 561231001934 ring oligomerisation interface [polypeptide binding]; other site 561231001935 ATP/Mg binding site [chemical binding]; other site 561231001936 stacking interactions; other site 561231001937 hinge regions; other site 561231001938 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 561231001939 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 561231001940 UbiA prenyltransferase family; Region: UbiA; pfam01040 561231001941 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 561231001942 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 561231001943 putative acyl-acceptor binding pocket; other site 561231001944 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 561231001945 LexA repressor; Validated; Region: PRK00215 561231001946 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 561231001947 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 561231001948 Catalytic site [active] 561231001949 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 561231001950 metal binding site 2 [ion binding]; metal-binding site 561231001951 putative DNA binding helix; other site 561231001952 metal binding site 1 [ion binding]; metal-binding site 561231001953 dimer interface [polypeptide binding]; other site 561231001954 structural Zn2+ binding site [ion binding]; other site 561231001955 Pirin-related protein [General function prediction only]; Region: COG1741 561231001956 Pirin; Region: Pirin; pfam02678 561231001957 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231001958 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 561231001959 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 561231001960 dimerization interface [polypeptide binding]; other site 561231001961 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 561231001962 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 561231001963 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 561231001964 putative dimer interface [polypeptide binding]; other site 561231001965 N-terminal domain interface [polypeptide binding]; other site 561231001966 putative substrate binding pocket (H-site) [chemical binding]; other site 561231001967 Predicted membrane protein [Function unknown]; Region: COG2259 561231001968 YqjK-like protein; Region: YqjK; pfam13997 561231001969 Predicted membrane protein [Function unknown]; Region: COG5393 561231001970 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 561231001971 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 561231001972 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561231001973 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 561231001974 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 561231001975 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231001976 DNA-binding site [nucleotide binding]; DNA binding site 561231001977 FCD domain; Region: FCD; pfam07729 561231001978 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 561231001979 D-galactonate transporter; Region: 2A0114; TIGR00893 561231001980 putative substrate translocation pore; other site 561231001981 Glucuronate isomerase; Region: UxaC; pfam02614 561231001982 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 561231001983 altronate oxidoreductase; Provisional; Region: PRK03643 561231001984 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561231001985 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561231001986 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 561231001987 galactarate dehydratase; Region: galactar-dH20; TIGR03248 561231001988 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 561231001989 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 561231001990 serine/threonine transporter SstT; Provisional; Region: PRK13628 561231001991 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561231001992 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 561231001993 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561231001994 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561231001995 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 561231001996 Methyltransferase small domain; Region: MTS; pfam05175 561231001997 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561231001998 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 561231001999 active site 561231002000 FMN binding site [chemical binding]; other site 561231002001 2,4-decadienoyl-CoA binding site; other site 561231002002 catalytic residue [active] 561231002003 4Fe-4S cluster binding site [ion binding]; other site 561231002004 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 561231002005 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561231002006 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 561231002007 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 561231002008 dimer interface [polypeptide binding]; other site 561231002009 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231002010 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231002011 metal binding site [ion binding]; metal-binding site 561231002012 active site 561231002013 I-site; other site 561231002014 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 561231002015 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561231002016 active site turn [active] 561231002017 phosphorylation site [posttranslational modification] 561231002018 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561231002019 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 561231002020 HPr interaction site; other site 561231002021 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561231002022 active site 561231002023 phosphorylation site [posttranslational modification] 561231002024 transcriptional antiterminator BglG; Provisional; Region: PRK09772 561231002025 CAT RNA binding domain; Region: CAT_RBD; smart01061 561231002026 PRD domain; Region: PRD; pfam00874 561231002027 PRD domain; Region: PRD; pfam00874 561231002028 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 561231002029 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 561231002030 trimer interface; other site 561231002031 sugar binding site [chemical binding]; other site 561231002032 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 561231002033 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 561231002034 Sulfatase; Region: Sulfatase; cl17466 561231002035 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 561231002036 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 561231002037 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 561231002038 FeS/SAM binding site; other site 561231002039 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 561231002040 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 561231002041 Sulfatase; Region: Sulfatase; pfam00884 561231002042 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 561231002043 beta-phosphoglucomutase; Region: bPGM; TIGR01990 561231002044 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 561231002045 motif II; other site 561231002046 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 561231002047 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 561231002048 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 561231002049 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 561231002050 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 561231002051 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561231002052 active site turn [active] 561231002053 phosphorylation site [posttranslational modification] 561231002054 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561231002055 trehalose repressor; Provisional; Region: treR; PRK09492 561231002056 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231002057 DNA binding site [nucleotide binding] 561231002058 domain linker motif; other site 561231002059 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 561231002060 dimerization interface [polypeptide binding]; other site 561231002061 ligand binding site [chemical binding]; other site 561231002062 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 561231002063 beta-galactosidase; Region: BGL; TIGR03356 561231002064 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 561231002065 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 561231002066 molybdopterin cofactor binding site; other site 561231002067 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 561231002068 molybdopterin cofactor binding site; other site 561231002069 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 561231002070 Flavodoxin; Region: Flavodoxin_1; pfam00258 561231002071 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 561231002072 FAD binding pocket [chemical binding]; other site 561231002073 FAD binding motif [chemical binding]; other site 561231002074 catalytic residues [active] 561231002075 NAD binding pocket [chemical binding]; other site 561231002076 phosphate binding motif [ion binding]; other site 561231002077 beta-alpha-beta structure motif; other site 561231002078 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 561231002079 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 561231002080 potential catalytic triad [active] 561231002081 conserved cys residue [active] 561231002082 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231002083 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231002084 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 561231002085 putative effector binding pocket; other site 561231002086 putative dimerization interface [polypeptide binding]; other site 561231002087 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 561231002088 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231002089 DNA-binding site [nucleotide binding]; DNA binding site 561231002090 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 561231002091 transketolase; Reviewed; Region: PRK12753 561231002092 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 561231002093 TPP-binding site [chemical binding]; other site 561231002094 dimer interface [polypeptide binding]; other site 561231002095 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 561231002096 PYR/PP interface [polypeptide binding]; other site 561231002097 dimer interface [polypeptide binding]; other site 561231002098 TPP binding site [chemical binding]; other site 561231002099 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 561231002100 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561231002101 active site 561231002102 phosphorylation site [posttranslational modification] 561231002103 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 561231002104 active site 561231002105 P-loop; other site 561231002106 phosphorylation site [posttranslational modification] 561231002107 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 561231002108 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561231002109 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 561231002110 active site 561231002111 SUMO-1 interface [polypeptide binding]; other site 561231002112 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 561231002113 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 561231002114 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 561231002115 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 561231002116 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561231002117 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 561231002118 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 561231002119 DNA binding residues [nucleotide binding] 561231002120 DNA primase; Validated; Region: dnaG; PRK05667 561231002121 CHC2 zinc finger; Region: zf-CHC2; pfam01807 561231002122 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 561231002123 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 561231002124 active site 561231002125 metal binding site [ion binding]; metal-binding site 561231002126 interdomain interaction site; other site 561231002127 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 561231002128 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 561231002129 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 561231002130 UGMP family protein; Validated; Region: PRK09604 561231002131 arginine repressor; Provisional; Region: PRK05066 561231002132 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 561231002133 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 561231002134 malate dehydrogenase; Provisional; Region: PRK05086 561231002135 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 561231002136 NAD binding site [chemical binding]; other site 561231002137 dimerization interface [polypeptide binding]; other site 561231002138 Substrate binding site [chemical binding]; other site 561231002139 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561231002140 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 561231002141 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 561231002142 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 561231002143 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 561231002144 substrate binding pocket [chemical binding]; other site 561231002145 chain length determination region; other site 561231002146 substrate-Mg2+ binding site; other site 561231002147 catalytic residues [active] 561231002148 aspartate-rich region 1; other site 561231002149 active site lid residues [active] 561231002150 aspartate-rich region 2; other site 561231002151 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 561231002152 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 561231002153 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 561231002154 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561231002155 EamA-like transporter family; Region: EamA; pfam00892 561231002156 EamA-like transporter family; Region: EamA; pfam00892 561231002157 GTPase CgtA; Reviewed; Region: obgE; PRK12298 561231002158 GTP1/OBG; Region: GTP1_OBG; pfam01018 561231002159 Obg GTPase; Region: Obg; cd01898 561231002160 G1 box; other site 561231002161 GTP/Mg2+ binding site [chemical binding]; other site 561231002162 Switch I region; other site 561231002163 G2 box; other site 561231002164 G3 box; other site 561231002165 Switch II region; other site 561231002166 G4 box; other site 561231002167 G5 box; other site 561231002168 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 561231002169 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 561231002170 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 561231002171 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 561231002172 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 561231002173 RNA-binding protein YhbY; Provisional; Region: PRK10343 561231002174 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 561231002175 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 561231002176 S-adenosylmethionine binding site [chemical binding]; other site 561231002177 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 561231002178 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 561231002179 Walker A motif; other site 561231002180 ATP binding site [chemical binding]; other site 561231002181 Walker B motif; other site 561231002182 arginine finger; other site 561231002183 Peptidase family M41; Region: Peptidase_M41; pfam01434 561231002184 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 561231002185 dihydropteroate synthase; Region: DHPS; TIGR01496 561231002186 substrate binding pocket [chemical binding]; other site 561231002187 dimer interface [polypeptide binding]; other site 561231002188 inhibitor binding site; inhibition site 561231002189 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 561231002190 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 561231002191 active site 561231002192 substrate binding site [chemical binding]; other site 561231002193 metal binding site [ion binding]; metal-binding site 561231002194 Preprotein translocase SecG subunit; Region: SecG; pfam03840 561231002195 ribosome maturation protein RimP; Reviewed; Region: PRK00092 561231002196 hypothetical protein; Provisional; Region: PRK14641 561231002197 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 561231002198 putative oligomer interface [polypeptide binding]; other site 561231002199 putative RNA binding site [nucleotide binding]; other site 561231002200 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 561231002201 NusA N-terminal domain; Region: NusA_N; pfam08529 561231002202 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 561231002203 RNA binding site [nucleotide binding]; other site 561231002204 homodimer interface [polypeptide binding]; other site 561231002205 NusA-like KH domain; Region: KH_5; pfam13184 561231002206 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 561231002207 G-X-X-G motif; other site 561231002208 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 561231002209 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 561231002210 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 561231002211 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 561231002212 translation initiation factor IF-2; Region: IF-2; TIGR00487 561231002213 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 561231002214 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 561231002215 G1 box; other site 561231002216 putative GEF interaction site [polypeptide binding]; other site 561231002217 GTP/Mg2+ binding site [chemical binding]; other site 561231002218 Switch I region; other site 561231002219 G2 box; other site 561231002220 G3 box; other site 561231002221 Switch II region; other site 561231002222 G4 box; other site 561231002223 G5 box; other site 561231002224 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 561231002225 Translation-initiation factor 2; Region: IF-2; pfam11987 561231002226 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 561231002227 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 561231002228 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 561231002229 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 561231002230 RNA binding site [nucleotide binding]; other site 561231002231 active site 561231002232 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 561231002233 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 561231002234 16S/18S rRNA binding site [nucleotide binding]; other site 561231002235 S13e-L30e interaction site [polypeptide binding]; other site 561231002236 25S rRNA binding site [nucleotide binding]; other site 561231002237 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 561231002238 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 561231002239 RNase E interface [polypeptide binding]; other site 561231002240 trimer interface [polypeptide binding]; other site 561231002241 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 561231002242 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 561231002243 RNase E interface [polypeptide binding]; other site 561231002244 trimer interface [polypeptide binding]; other site 561231002245 active site 561231002246 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 561231002247 putative nucleic acid binding region [nucleotide binding]; other site 561231002248 G-X-X-G motif; other site 561231002249 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 561231002250 RNA binding site [nucleotide binding]; other site 561231002251 domain interface; other site 561231002252 lipoprotein NlpI; Provisional; Region: PRK11189 561231002253 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 561231002254 binding surface 561231002255 TPR motif; other site 561231002256 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 561231002257 DEAD-like helicases superfamily; Region: DEXDc; smart00487 561231002258 ATP binding site [chemical binding]; other site 561231002259 Mg++ binding site [ion binding]; other site 561231002260 motif III; other site 561231002261 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 561231002262 nucleotide binding region [chemical binding]; other site 561231002263 ATP-binding site [chemical binding]; other site 561231002264 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 561231002265 putative RNA binding site [nucleotide binding]; other site 561231002266 hypothetical protein; Provisional; Region: PRK10508 561231002267 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 561231002268 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 561231002269 putative protease; Provisional; Region: PRK15447 561231002270 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 561231002271 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 561231002272 Peptidase family U32; Region: Peptidase_U32; pfam01136 561231002273 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 561231002274 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231002275 Coenzyme A binding pocket [chemical binding]; other site 561231002276 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 561231002277 GIY-YIG motif/motif A; other site 561231002278 putative active site [active] 561231002279 putative metal binding site [ion binding]; other site 561231002280 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 561231002281 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 561231002282 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 561231002283 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 561231002284 phosphopentomutase; Provisional; Region: PRK05362 561231002285 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 561231002286 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 561231002287 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 561231002288 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561231002289 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 561231002290 N-terminal plug; other site 561231002291 ligand-binding site [chemical binding]; other site 561231002292 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 561231002293 sugar binding site [chemical binding]; other site 561231002294 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 561231002295 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231002296 Coenzyme A binding pocket [chemical binding]; other site 561231002297 DNA polymerase III subunit psi; Validated; Region: PRK06856 561231002298 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 561231002299 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 561231002300 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 561231002301 S-adenosylmethionine binding site [chemical binding]; other site 561231002302 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 561231002303 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561231002304 active site 561231002305 catalytic tetrad [active] 561231002306 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231002307 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231002308 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 561231002309 putative effector binding pocket; other site 561231002310 putative dimerization interface [polypeptide binding]; other site 561231002311 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 561231002312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231002313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231002314 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 561231002315 putative dimerization interface [polypeptide binding]; other site 561231002316 putative substrate binding pocket [chemical binding]; other site 561231002317 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 561231002318 acetolactate synthase; Reviewed; Region: PRK08617 561231002319 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561231002320 PYR/PP interface [polypeptide binding]; other site 561231002321 dimer interface [polypeptide binding]; other site 561231002322 TPP binding site [chemical binding]; other site 561231002323 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561231002324 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 561231002325 TPP-binding site [chemical binding]; other site 561231002326 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 561231002327 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 561231002328 dimer interface [polypeptide binding]; other site 561231002329 active site 561231002330 metal binding site [ion binding]; metal-binding site 561231002331 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 561231002332 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 561231002333 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 561231002334 lipoyl attachment site [posttranslational modification]; other site 561231002335 glycine dehydrogenase; Provisional; Region: PRK05367 561231002336 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 561231002337 tetramer interface [polypeptide binding]; other site 561231002338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231002339 catalytic residue [active] 561231002340 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 561231002341 tetramer interface [polypeptide binding]; other site 561231002342 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231002343 catalytic residue [active] 561231002344 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 561231002345 dimer interface [polypeptide binding]; other site 561231002346 conserved gate region; other site 561231002347 putative PBP binding loops; other site 561231002348 ABC-ATPase subunit interface; other site 561231002349 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561231002350 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 561231002351 dimer interface [polypeptide binding]; other site 561231002352 conserved gate region; other site 561231002353 putative PBP binding loops; other site 561231002354 ABC-ATPase subunit interface; other site 561231002355 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 561231002356 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561231002357 active site 561231002358 metal binding site [ion binding]; metal-binding site 561231002359 hexamer interface [polypeptide binding]; other site 561231002360 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 561231002361 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561231002362 Walker A/P-loop; other site 561231002363 ATP binding site [chemical binding]; other site 561231002364 Q-loop/lid; other site 561231002365 ABC transporter signature motif; other site 561231002366 Walker B; other site 561231002367 D-loop; other site 561231002368 H-loop/switch region; other site 561231002369 TOBE domain; Region: TOBE_2; pfam08402 561231002370 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561231002371 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 561231002372 galactoside permease; Reviewed; Region: lacY; PRK09528 561231002373 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 561231002374 putative substrate translocation pore; other site 561231002375 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 561231002376 Melibiase; Region: Melibiase; pfam02065 561231002377 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561231002378 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231002379 DNA binding site [nucleotide binding] 561231002380 domain linker motif; other site 561231002381 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 561231002382 ligand binding site [chemical binding]; other site 561231002383 HD domain; Region: HD_3; pfam13023 561231002384 hemolysin; Provisional; Region: PRK15087 561231002385 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 561231002386 putative global regulator; Reviewed; Region: PRK09559 561231002387 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 561231002388 hypothetical protein; Provisional; Region: PRK10878 561231002389 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 561231002390 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 561231002391 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 561231002392 S-adenosylmethionine binding site [chemical binding]; other site 561231002393 flavodoxin FldB; Provisional; Region: PRK12359 561231002394 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 561231002395 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 561231002396 Walker A/P-loop; other site 561231002397 ATP binding site [chemical binding]; other site 561231002398 Q-loop/lid; other site 561231002399 ABC transporter signature motif; other site 561231002400 Walker B; other site 561231002401 D-loop; other site 561231002402 H-loop/switch region; other site 561231002403 NIL domain; Region: NIL; pfam09383 561231002404 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 561231002405 dimer interface [polypeptide binding]; other site 561231002406 conserved gate region; other site 561231002407 putative PBP binding loops; other site 561231002408 ABC-ATPase subunit interface; other site 561231002409 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 561231002410 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 561231002411 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 561231002412 metabolite-proton symporter; Region: 2A0106; TIGR00883 561231002413 putative substrate translocation pore; other site 561231002414 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 561231002415 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 561231002416 active site 561231002417 Int/Topo IB signature motif; other site 561231002418 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 561231002419 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 561231002420 dimerization domain [polypeptide binding]; other site 561231002421 dimer interface [polypeptide binding]; other site 561231002422 catalytic residues [active] 561231002423 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 561231002424 DHH family; Region: DHH; pfam01368 561231002425 DHHA1 domain; Region: DHHA1; pfam02272 561231002426 peptide chain release factor 2; Validated; Region: prfB; PRK00578 561231002427 This domain is found in peptide chain release factors; Region: PCRF; smart00937 561231002428 RF-1 domain; Region: RF-1; pfam00472 561231002429 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 561231002430 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 561231002431 dimer interface [polypeptide binding]; other site 561231002432 putative anticodon binding site; other site 561231002433 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 561231002434 motif 1; other site 561231002435 active site 561231002436 motif 2; other site 561231002437 motif 3; other site 561231002438 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561231002439 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231002440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231002441 LysE type translocator; Region: LysE; cl00565 561231002442 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 561231002443 Int/Topo IB signature motif; other site 561231002444 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 561231002445 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 561231002446 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 561231002447 catalytic residues [active] 561231002448 catalytic nucleophile [active] 561231002449 Helix-turn-helix domain; Region: HTH_38; pfam13936 561231002450 Influenza virus nucleoprotein; Region: Flu_NP; pfam00506 561231002451 HNH endonuclease; Region: HNH_3; pfam13392 561231002452 putative NHN endonuclease; Region: PHA00280 561231002453 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 561231002454 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 561231002455 active site 561231002456 DNA binding site [nucleotide binding] 561231002457 Int/Topo IB signature motif; other site 561231002458 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 561231002459 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 561231002460 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 561231002461 putative acyl-acceptor binding pocket; other site 561231002462 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 561231002463 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 561231002464 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 561231002465 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 561231002466 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 561231002467 active site 561231002468 phosphorylation site [posttranslational modification] 561231002469 intermolecular recognition site; other site 561231002470 dimerization interface [polypeptide binding]; other site 561231002471 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 561231002472 DNA binding site [nucleotide binding] 561231002473 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 561231002474 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561231002475 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 561231002476 dimer interface [polypeptide binding]; other site 561231002477 phosphorylation site [posttranslational modification] 561231002478 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 561231002479 ATP binding site [chemical binding]; other site 561231002480 Mg2+ binding site [ion binding]; other site 561231002481 G-X-G motif; other site 561231002482 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 561231002483 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 561231002484 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 561231002485 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 561231002486 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561231002487 pilus (Caulobacter type) biogenesis lipoprotein CpaD; Region: pilus_cpaD; TIGR02522 561231002488 Type IV pili component [Cell motility and secretion]; Region: COG5461 561231002489 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 561231002490 active site 561231002491 phosphorylation site [posttranslational modification] 561231002492 dimerization interface [polypeptide binding]; other site 561231002493 AAA domain; Region: AAA_31; pfam13614 561231002494 Type II/IV secretion system protein; Region: T2SE; pfam00437 561231002495 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 561231002496 ATP binding site [chemical binding]; other site 561231002497 Walker A motif; other site 561231002498 hexamer interface [polypeptide binding]; other site 561231002499 Walker B motif; other site 561231002500 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 561231002501 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561231002502 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 561231002503 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561231002504 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 561231002505 binding surface 561231002506 TPR motif; other site 561231002507 Tetratricopeptide repeat; Region: TPR_12; pfam13424 561231002508 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 561231002509 binding surface 561231002510 TPR motif; other site 561231002511 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 561231002512 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 561231002513 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 561231002514 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561231002515 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561231002516 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231002517 Putative Ig domain; Region: He_PIG; pfam05345 561231002518 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561231002519 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561231002520 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561231002521 Putative Ig domain; Region: He_PIG; pfam05345 561231002522 Outer membrane efflux protein; Region: OEP; pfam02321 561231002523 Outer membrane efflux protein; Region: OEP; pfam02321 561231002524 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231002525 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231002526 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 561231002527 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231002528 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 561231002529 active site 561231002530 putative substrate binding region [chemical binding]; other site 561231002531 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231002532 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231002533 N-terminal catalytic domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_N; cd10320 561231002534 active site 561231002535 catalytic site [active] 561231002536 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 561231002537 C-terminal domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_C; cd10317 561231002538 Ca binding site [ion binding]; other site 561231002539 substrate binding site [chemical binding]; other site 561231002540 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 561231002541 putative transposase; Provisional; Region: PRK09857 561231002542 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 561231002543 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 561231002544 Na binding site [ion binding]; other site 561231002545 Predicted membrane protein [Function unknown]; Region: COG3162 561231002546 acetyl-CoA synthetase; Provisional; Region: PRK00174 561231002547 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 561231002548 active site 561231002549 CoA binding site [chemical binding]; other site 561231002550 acyl-activating enzyme (AAE) consensus motif; other site 561231002551 AMP binding site [chemical binding]; other site 561231002552 acetate binding site [chemical binding]; other site 561231002553 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 561231002554 HTH domain; Region: HTH_11; pfam08279 561231002555 Mga helix-turn-helix domain; Region: Mga; pfam05043 561231002556 PRD domain; Region: PRD; pfam00874 561231002557 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 561231002558 active site 561231002559 P-loop; other site 561231002560 phosphorylation site [posttranslational modification] 561231002561 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561231002562 active site 561231002563 phosphorylation site [posttranslational modification] 561231002564 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 561231002565 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 561231002566 dihydroorotase; Provisional; Region: PRK09237 561231002567 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 561231002568 active site 561231002569 conserved hypothetical protein EF_0833/AHA_3914; Region: EF_0833; TIGR03579 561231002570 conserved hypothetical protein EF_0832/AHA_3913; Region: EF_0832; TIGR03580 561231002571 conserved hypothetical protein EF_0831/AHA_3912; Region: EF_0831; TIGR03578 561231002572 conserved hypothetical protein EF_0830/AHA_3911; Region: EF_0830; TIGR03577 561231002573 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 561231002574 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 561231002575 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 561231002576 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 561231002577 D-mannonate oxidoreductase; Provisional; Region: PRK15037 561231002578 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561231002579 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561231002580 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 561231002581 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 561231002582 homodimer interface [polypeptide binding]; other site 561231002583 substrate-cofactor binding pocket; other site 561231002584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231002585 catalytic residue [active] 561231002586 L,D-transpeptidase; Provisional; Region: PRK10260 561231002587 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 561231002588 Predicted amidohydrolase [General function prediction only]; Region: COG0388 561231002589 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 561231002590 putative active site [active] 561231002591 catalytic triad [active] 561231002592 putative dimer interface [polypeptide binding]; other site 561231002593 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 561231002594 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 561231002595 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 561231002596 dimer interface [polypeptide binding]; other site 561231002597 PYR/PP interface [polypeptide binding]; other site 561231002598 TPP binding site [chemical binding]; other site 561231002599 substrate binding site [chemical binding]; other site 561231002600 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 561231002601 Domain of unknown function; Region: EKR; smart00890 561231002602 4Fe-4S binding domain; Region: Fer4_6; pfam12837 561231002603 4Fe-4S binding domain; Region: Fer4; pfam00037 561231002604 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 561231002605 TPP-binding site [chemical binding]; other site 561231002606 dimer interface [polypeptide binding]; other site 561231002607 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 561231002608 active site 561231002609 putative symporter YagG; Provisional; Region: PRK09669 561231002610 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 561231002611 putative substrate translocation pore; other site 561231002612 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231002613 Coenzyme A binding pocket [chemical binding]; other site 561231002614 LysE type translocator; Region: LysE; cl00565 561231002615 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 561231002616 Fic/DOC family; Region: Fic; cl00960 561231002617 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 561231002618 Predicted transcriptional regulator [Transcription]; Region: COG3905 561231002619 Siderophore-interacting FAD-binding domain; Region: FAD_binding_9; pfam08021 561231002620 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 561231002621 IucA / IucC family; Region: IucA_IucC; pfam04183 561231002622 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 561231002623 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 561231002624 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 561231002625 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 561231002626 IucA / IucC family; Region: IucA_IucC; pfam04183 561231002627 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 561231002628 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 561231002629 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561231002630 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561231002631 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 561231002632 N-terminal plug; other site 561231002633 ligand-binding site [chemical binding]; other site 561231002634 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 561231002635 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 561231002636 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 561231002637 Predicted ATPase [General function prediction only]; Region: COG3911 561231002638 AAA domain; Region: AAA_28; pfam13521 561231002639 SIR2-like domain; Region: SIR2_2; pfam13289 561231002640 integrase; Provisional; Region: PRK09692 561231002641 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231002642 active site 561231002643 Int/Topo IB signature motif; other site 561231002644 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 561231002645 SmpB-tmRNA interface; other site 561231002646 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 561231002647 putative coenzyme Q binding site [chemical binding]; other site 561231002648 hypothetical protein; Validated; Region: PRK01777 561231002649 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 561231002650 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 561231002651 recombination and repair protein; Provisional; Region: PRK10869 561231002652 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 561231002653 Walker A/P-loop; other site 561231002654 ATP binding site [chemical binding]; other site 561231002655 Q-loop/lid; other site 561231002656 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 561231002657 ABC transporter signature motif; other site 561231002658 Walker B; other site 561231002659 D-loop; other site 561231002660 H-loop/switch region; other site 561231002661 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 561231002662 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 561231002663 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 561231002664 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 561231002665 dimer interface [polypeptide binding]; other site 561231002666 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 561231002667 manganese transport protein MntH; Reviewed; Region: PRK00701 561231002668 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 561231002669 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 561231002670 active site 1 [active] 561231002671 dimer interface [polypeptide binding]; other site 561231002672 hexamer interface [polypeptide binding]; other site 561231002673 active site 2 [active] 561231002674 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 561231002675 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 561231002676 dimer interface [polypeptide binding]; other site 561231002677 ADP-ribose binding site [chemical binding]; other site 561231002678 active site 561231002679 nudix motif; other site 561231002680 metal binding site [ion binding]; metal-binding site 561231002681 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561231002682 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561231002683 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 561231002684 dimer interface [polypeptide binding]; other site 561231002685 conserved gate region; other site 561231002686 putative PBP binding loops; other site 561231002687 ABC-ATPase subunit interface; other site 561231002688 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561231002689 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 561231002690 dimer interface [polypeptide binding]; other site 561231002691 conserved gate region; other site 561231002692 putative PBP binding loops; other site 561231002693 ABC-ATPase subunit interface; other site 561231002694 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561231002695 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561231002696 Walker A/P-loop; other site 561231002697 ATP binding site [chemical binding]; other site 561231002698 Q-loop/lid; other site 561231002699 ABC transporter signature motif; other site 561231002700 Walker B; other site 561231002701 D-loop; other site 561231002702 H-loop/switch region; other site 561231002703 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 561231002704 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 561231002705 putative sugar binding sites [chemical binding]; other site 561231002706 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 561231002707 Q-X-W motif; other site 561231002708 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 561231002709 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231002710 DNA binding site [nucleotide binding] 561231002711 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 561231002712 putative dimerization interface [polypeptide binding]; other site 561231002713 putative ligand binding site [chemical binding]; other site 561231002714 transcriptional antiterminator BglG; Provisional; Region: PRK09772 561231002715 CAT RNA binding domain; Region: CAT_RBD; smart01061 561231002716 PRD domain; Region: PRD; pfam00874 561231002717 PRD domain; Region: PRD; pfam00874 561231002718 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 561231002719 beta-galactosidase; Region: BGL; TIGR03356 561231002720 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 561231002721 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561231002722 active site turn [active] 561231002723 phosphorylation site [posttranslational modification] 561231002724 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561231002725 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 561231002726 HPr interaction site; other site 561231002727 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561231002728 active site 561231002729 phosphorylation site [posttranslational modification] 561231002730 transketolase; Reviewed; Region: PRK12753 561231002731 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 561231002732 TPP-binding site [chemical binding]; other site 561231002733 dimer interface [polypeptide binding]; other site 561231002734 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 561231002735 PYR/PP interface [polypeptide binding]; other site 561231002736 dimer interface [polypeptide binding]; other site 561231002737 TPP binding site [chemical binding]; other site 561231002738 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 561231002739 transaldolase-like protein; Provisional; Region: PTZ00411 561231002740 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 561231002741 active site 561231002742 dimer interface [polypeptide binding]; other site 561231002743 catalytic residue [active] 561231002744 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 561231002745 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 561231002746 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 561231002747 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 561231002748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 561231002749 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 561231002750 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 561231002751 triosephosphate isomerase; Provisional; Region: PRK14567 561231002752 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 561231002753 substrate binding site [chemical binding]; other site 561231002754 dimer interface [polypeptide binding]; other site 561231002755 catalytic triad [active] 561231002756 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 561231002757 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 561231002758 DNA binding residues [nucleotide binding] 561231002759 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 561231002760 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 561231002761 Malic enzyme, N-terminal domain; Region: malic; pfam00390 561231002762 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 561231002763 putative NAD(P) binding site [chemical binding]; other site 561231002764 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 561231002765 tryptophan permease; Provisional; Region: PRK10483 561231002766 aromatic amino acid transport protein; Region: araaP; TIGR00837 561231002767 hypothetical protein; Validated; Region: PRK00124 561231002768 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 561231002769 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 561231002770 putative acetyltransferase; Provisional; Region: PRK03624 561231002771 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231002772 Coenzyme A binding pocket [chemical binding]; other site 561231002773 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 561231002774 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561231002775 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 561231002776 DNA binding residues [nucleotide binding] 561231002777 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 561231002778 FecR protein; Region: FecR; pfam04773 561231002779 Secretin and TonB N terminus short domain; Region: STN; smart00965 561231002780 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 561231002781 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 561231002782 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 561231002783 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 561231002784 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561231002785 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 561231002786 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 561231002787 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 561231002788 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 561231002789 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 561231002790 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 561231002791 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 561231002792 thiosulfate transporter subunit; Provisional; Region: PRK10852 561231002793 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561231002794 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561231002795 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 561231002796 dimer interface [polypeptide binding]; other site 561231002797 conserved gate region; other site 561231002798 putative PBP binding loops; other site 561231002799 ABC-ATPase subunit interface; other site 561231002800 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561231002801 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 561231002802 dimer interface [polypeptide binding]; other site 561231002803 conserved gate region; other site 561231002804 putative PBP binding loops; other site 561231002805 ABC-ATPase subunit interface; other site 561231002806 cysteine synthase B; Region: cysM; TIGR01138 561231002807 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 561231002808 dimer interface [polypeptide binding]; other site 561231002809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231002810 catalytic residue [active] 561231002811 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 561231002812 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561231002813 Walker A/P-loop; other site 561231002814 ATP binding site [chemical binding]; other site 561231002815 Q-loop/lid; other site 561231002816 ABC transporter signature motif; other site 561231002817 Walker B; other site 561231002818 D-loop; other site 561231002819 H-loop/switch region; other site 561231002820 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561231002821 FtsX-like permease family; Region: FtsX; pfam02687 561231002822 macrolide transporter subunit MacA; Provisional; Region: PRK11578 561231002823 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231002824 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231002825 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 561231002826 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 561231002827 active site 561231002828 phosphorylation site [posttranslational modification] 561231002829 intermolecular recognition site; other site 561231002830 dimerization interface [polypeptide binding]; other site 561231002831 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 561231002832 DNA binding site [nucleotide binding] 561231002833 two-component sensor protein; Provisional; Region: cpxA; PRK09470 561231002834 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 561231002835 dimerization interface [polypeptide binding]; other site 561231002836 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 561231002837 dimer interface [polypeptide binding]; other site 561231002838 phosphorylation site [posttranslational modification] 561231002839 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 561231002840 ATP binding site [chemical binding]; other site 561231002841 Mg2+ binding site [ion binding]; other site 561231002842 G-X-G motif; other site 561231002843 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 561231002844 HPr interaction site; other site 561231002845 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561231002846 active site 561231002847 phosphorylation site [posttranslational modification] 561231002848 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 561231002849 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 561231002850 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 561231002851 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 561231002852 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 561231002853 dimerization domain swap beta strand [polypeptide binding]; other site 561231002854 regulatory protein interface [polypeptide binding]; other site 561231002855 active site 561231002856 regulatory phosphorylation site [posttranslational modification]; other site 561231002857 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 561231002858 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 561231002859 dimer interface [polypeptide binding]; other site 561231002860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231002861 catalytic residue [active] 561231002862 putative sulfate transport protein CysZ; Validated; Region: PRK04949 561231002863 cell division protein ZipA; Provisional; Region: PRK03427 561231002864 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 561231002865 FtsZ protein binding site [polypeptide binding]; other site 561231002866 putative transporter; Provisional; Region: PRK11021 561231002867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 561231002868 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 561231002869 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 561231002870 tellurite resistance protein TehB; Provisional; Region: PRK12335 561231002871 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 561231002872 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 561231002873 S-adenosylmethionine binding site [chemical binding]; other site 561231002874 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 561231002875 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561231002876 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231002877 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 561231002878 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 561231002879 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 561231002880 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 561231002881 iron binding site [ion binding]; other site 561231002882 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 561231002883 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 561231002884 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 561231002885 Walker A motif; other site 561231002886 ATP binding site [chemical binding]; other site 561231002887 Walker B motif; other site 561231002888 arginine finger; other site 561231002889 fumarate hydratase; Provisional; Region: PRK15389 561231002890 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 561231002891 Fumarase C-terminus; Region: Fumerase_C; pfam05683 561231002892 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231002893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231002894 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 561231002895 dimerization interface [polypeptide binding]; other site 561231002896 Predicted membrane protein [Function unknown]; Region: COG4125 561231002897 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 561231002898 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 561231002899 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 561231002900 endonuclease III; Region: ENDO3c; smart00478 561231002901 minor groove reading motif; other site 561231002902 helix-hairpin-helix signature motif; other site 561231002903 substrate binding pocket [chemical binding]; other site 561231002904 active site 561231002905 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 561231002906 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 561231002907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231002908 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 561231002909 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 561231002910 DNA binding site [nucleotide binding] 561231002911 active site 561231002912 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 561231002913 hypothetical protein; Validated; Region: PRK07121 561231002914 Predicted oxidoreductase [General function prediction only]; Region: COG3573 561231002915 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 561231002916 FMN-binding domain; Region: FMN_bind; pfam04205 561231002917 putative transporter; Provisional; Region: PRK10504 561231002918 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 561231002919 putative substrate translocation pore; other site 561231002920 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 561231002921 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 561231002922 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 561231002923 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 561231002924 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 561231002925 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 561231002926 substrate binding pocket [chemical binding]; other site 561231002927 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561231002928 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231002929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231002930 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 561231002931 dimerization interface [polypeptide binding]; other site 561231002932 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 561231002933 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 561231002934 putative active site pocket [active] 561231002935 putative metal binding site [ion binding]; other site 561231002936 putative oxidoreductase; Provisional; Region: PRK10083 561231002937 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 561231002938 putative NAD(P) binding site [chemical binding]; other site 561231002939 catalytic Zn binding site [ion binding]; other site 561231002940 structural Zn binding site [ion binding]; other site 561231002941 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 561231002942 metabolite-proton symporter; Region: 2A0106; TIGR00883 561231002943 putative substrate translocation pore; other site 561231002944 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 561231002945 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561231002946 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561231002947 Transcriptional regulators [Transcription]; Region: GntR; COG1802 561231002948 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231002949 DNA-binding site [nucleotide binding]; DNA binding site 561231002950 FCD domain; Region: FCD; pfam07729 561231002951 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 561231002952 drug efflux system protein MdtG; Provisional; Region: PRK09874 561231002953 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 561231002954 putative substrate translocation pore; other site 561231002955 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 561231002956 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 561231002957 Na binding site [ion binding]; other site 561231002958 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 561231002959 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 561231002960 DNA binding residues [nucleotide binding] 561231002961 dimerization interface [polypeptide binding]; other site 561231002962 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561231002963 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561231002964 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561231002965 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 561231002966 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 561231002967 active site residue [active] 561231002968 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 561231002969 active site residue [active] 561231002970 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561231002971 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561231002972 Walker A/P-loop; other site 561231002973 ATP binding site [chemical binding]; other site 561231002974 Q-loop/lid; other site 561231002975 ABC transporter signature motif; other site 561231002976 Walker B; other site 561231002977 D-loop; other site 561231002978 H-loop/switch region; other site 561231002979 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231002980 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 561231002981 dimer interface [polypeptide binding]; other site 561231002982 conserved gate region; other site 561231002983 putative PBP binding loops; other site 561231002984 ABC-ATPase subunit interface; other site 561231002985 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231002986 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 561231002987 dimer interface [polypeptide binding]; other site 561231002988 conserved gate region; other site 561231002989 putative PBP binding loops; other site 561231002990 ABC-ATPase subunit interface; other site 561231002991 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561231002992 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231002993 substrate binding pocket [chemical binding]; other site 561231002994 membrane-bound complex binding site; other site 561231002995 hinge residues; other site 561231002996 Transcriptional regulator [Transcription]; Region: IclR; COG1414 561231002997 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 561231002998 Bacterial transcriptional regulator; Region: IclR; pfam01614 561231002999 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 561231003000 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 561231003001 homodimer interface [polypeptide binding]; other site 561231003002 substrate-cofactor binding pocket; other site 561231003003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231003004 catalytic residue [active] 561231003005 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; pfam09587 561231003006 active site 561231003007 metal binding site [ion binding]; metal-binding site 561231003008 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 561231003009 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 561231003010 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 561231003011 N-terminal plug; other site 561231003012 ligand-binding site [chemical binding]; other site 561231003013 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 561231003014 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 561231003015 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 561231003016 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 561231003017 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 561231003018 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 561231003019 DNA binding site [nucleotide binding] 561231003020 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 561231003021 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561231003022 hypothetical protein; Provisional; Region: PRK10621 561231003023 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231003024 Coenzyme A binding pocket [chemical binding]; other site 561231003025 Protein of unknown function (DUF770); Region: DUF770; pfam05591 561231003026 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 561231003027 Protein of unknown function (DUF877); Region: DUF877; pfam05943 561231003028 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 561231003029 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 561231003030 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 561231003031 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 561231003032 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 561231003033 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 561231003034 phosphopeptide binding site; other site 561231003035 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 561231003036 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 561231003037 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 561231003038 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 561231003039 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 561231003040 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 561231003041 Walker A motif; other site 561231003042 ATP binding site [chemical binding]; other site 561231003043 Walker B motif; other site 561231003044 arginine finger; other site 561231003045 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 561231003046 Walker A motif; other site 561231003047 ATP binding site [chemical binding]; other site 561231003048 Walker B motif; other site 561231003049 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 561231003050 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 561231003051 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 561231003052 Walker A motif; other site 561231003053 ATP binding site [chemical binding]; other site 561231003054 Walker B motif; other site 561231003055 arginine finger; other site 561231003056 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 561231003057 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 561231003058 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 561231003059 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 561231003060 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 561231003061 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 561231003062 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 561231003063 ImpA domain protein; Region: DUF3702; pfam12486 561231003064 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 561231003065 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 561231003066 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 561231003067 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231003068 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 561231003069 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 561231003070 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 561231003071 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 561231003072 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 561231003073 substrate binding pocket [chemical binding]; other site 561231003074 active site 561231003075 iron coordination sites [ion binding]; other site 561231003076 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 561231003077 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 561231003078 active site 561231003079 TDP-binding site; other site 561231003080 acceptor substrate-binding pocket; other site 561231003081 glutaredoxin 2; Provisional; Region: PRK10387 561231003082 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 561231003083 C-terminal domain interface [polypeptide binding]; other site 561231003084 GSH binding site (G-site) [chemical binding]; other site 561231003085 catalytic residues [active] 561231003086 putative dimer interface [polypeptide binding]; other site 561231003087 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 561231003088 N-terminal domain interface [polypeptide binding]; other site 561231003089 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231003090 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231003091 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561231003092 putative effector binding pocket; other site 561231003093 dimerization interface [polypeptide binding]; other site 561231003094 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 561231003095 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561231003096 putative substrate translocation pore; other site 561231003097 Cache domain; Region: Cache_1; pfam02743 561231003098 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231003099 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231003100 metal binding site [ion binding]; metal-binding site 561231003101 active site 561231003102 I-site; other site 561231003103 inner membrane protein; Provisional; Region: PRK10995 561231003104 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 561231003105 putative hydrophobic ligand binding site [chemical binding]; other site 561231003106 hypothetical protein; Validated; Region: PRK03661 561231003107 recombinase A; Provisional; Region: recA; PRK09354 561231003108 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 561231003109 hexamer interface [polypeptide binding]; other site 561231003110 Walker A motif; other site 561231003111 ATP binding site [chemical binding]; other site 561231003112 Walker B motif; other site 561231003113 recombination regulator RecX; Reviewed; Region: recX; PRK00117 561231003114 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 561231003115 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 561231003116 motif 1; other site 561231003117 active site 561231003118 motif 2; other site 561231003119 motif 3; other site 561231003120 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 561231003121 DHHA1 domain; Region: DHHA1; pfam02272 561231003122 carbon storage regulator; Provisional; Region: PRK01712 561231003123 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 561231003124 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 561231003125 motif II; other site 561231003126 Predicted membrane protein [Function unknown]; Region: COG1238 561231003127 glutamate--cysteine ligase; Provisional; Region: PRK02107 561231003128 S-ribosylhomocysteinase; Provisional; Region: PRK02260 561231003129 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 561231003130 signal recognition particle protein; Provisional; Region: PRK10867 561231003131 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 561231003132 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 561231003133 P loop; other site 561231003134 GTP binding site [chemical binding]; other site 561231003135 Signal peptide binding domain; Region: SRP_SPB; pfam02978 561231003136 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 561231003137 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 561231003138 RimM N-terminal domain; Region: RimM; pfam01782 561231003139 PRC-barrel domain; Region: PRC; pfam05239 561231003140 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 561231003141 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 561231003142 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 561231003143 lipoprotein; Provisional; Region: PRK11443 561231003144 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 561231003145 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 561231003146 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 561231003147 active site 561231003148 phosphorylation site [posttranslational modification] 561231003149 intermolecular recognition site; other site 561231003150 dimerization interface [polypeptide binding]; other site 561231003151 LytTr DNA-binding domain; Region: LytTR; pfam04397 561231003152 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 561231003153 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561231003154 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 561231003155 Chorismate mutase type II; Region: CM_2; cl00693 561231003156 prephenate dehydrogenase; Validated; Region: PRK08507 561231003157 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 561231003158 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 561231003159 Prephenate dehydratase; Region: PDT; pfam00800 561231003160 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 561231003161 putative L-Phe binding site [chemical binding]; other site 561231003162 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 561231003163 30S subunit binding site; other site 561231003164 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 561231003165 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 561231003166 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 561231003167 RNA binding surface [nucleotide binding]; other site 561231003168 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 561231003169 active site 561231003170 hypothetical protein; Provisional; Region: PRK10723 561231003171 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 561231003172 protein disaggregation chaperone; Provisional; Region: PRK10865 561231003173 Clp amino terminal domain; Region: Clp_N; pfam02861 561231003174 Clp amino terminal domain; Region: Clp_N; pfam02861 561231003175 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 561231003176 Walker A motif; other site 561231003177 ATP binding site [chemical binding]; other site 561231003178 Walker B motif; other site 561231003179 arginine finger; other site 561231003180 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 561231003181 Walker A motif; other site 561231003182 ATP binding site [chemical binding]; other site 561231003183 Walker B motif; other site 561231003184 arginine finger; other site 561231003185 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 561231003186 hypothetical protein; Provisional; Region: PRK05421 561231003187 putative catalytic site [active] 561231003188 putative metal binding site [ion binding]; other site 561231003189 putative phosphate binding site [ion binding]; other site 561231003190 putative catalytic site [active] 561231003191 putative phosphate binding site [ion binding]; other site 561231003192 putative metal binding site [ion binding]; other site 561231003193 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 561231003194 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 561231003195 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561231003196 catalytic residue [active] 561231003197 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561231003198 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561231003199 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 561231003200 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 561231003201 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 561231003202 RNA/DNA hybrid binding site [nucleotide binding]; other site 561231003203 active site 561231003204 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 561231003205 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 561231003206 active site 561231003207 catalytic site [active] 561231003208 substrate binding site [chemical binding]; other site 561231003209 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 561231003210 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 561231003211 dimer interface [polypeptide binding]; other site 561231003212 putative radical transfer pathway; other site 561231003213 diiron center [ion binding]; other site 561231003214 tyrosyl radical; other site 561231003215 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 561231003216 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 561231003217 Class I ribonucleotide reductase; Region: RNR_I; cd01679 561231003218 active site 561231003219 dimer interface [polypeptide binding]; other site 561231003220 catalytic residues [active] 561231003221 effector binding site; other site 561231003222 R2 peptide binding site; other site 561231003223 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 561231003224 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 561231003225 catalytic residues [active] 561231003226 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 561231003227 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561231003228 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 561231003229 dimer interface [polypeptide binding]; other site 561231003230 conserved gate region; other site 561231003231 putative PBP binding loops; other site 561231003232 ABC-ATPase subunit interface; other site 561231003233 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 561231003234 dimer interface [polypeptide binding]; other site 561231003235 conserved gate region; other site 561231003236 putative PBP binding loops; other site 561231003237 ABC-ATPase subunit interface; other site 561231003238 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561231003239 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231003240 Walker A/P-loop; other site 561231003241 ATP binding site [chemical binding]; other site 561231003242 Q-loop/lid; other site 561231003243 ABC transporter signature motif; other site 561231003244 Walker B; other site 561231003245 D-loop; other site 561231003246 H-loop/switch region; other site 561231003247 TOBE domain; Region: TOBE_2; pfam08402 561231003248 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561231003249 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231003250 Coenzyme A binding pocket [chemical binding]; other site 561231003251 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561231003252 active site 561231003253 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 561231003254 active site clefts [active] 561231003255 zinc binding site [ion binding]; other site 561231003256 dimer interface [polypeptide binding]; other site 561231003257 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 561231003258 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 561231003259 Walker A/P-loop; other site 561231003260 ATP binding site [chemical binding]; other site 561231003261 Q-loop/lid; other site 561231003262 ABC transporter signature motif; other site 561231003263 Walker B; other site 561231003264 D-loop; other site 561231003265 H-loop/switch region; other site 561231003266 inner membrane transport permease; Provisional; Region: PRK15066 561231003267 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 561231003268 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 561231003269 tetramerization interface [polypeptide binding]; other site 561231003270 active site 561231003271 Pantoate-beta-alanine ligase; Region: PanC; cd00560 561231003272 pantoate--beta-alanine ligase; Region: panC; TIGR00018 561231003273 active site 561231003274 ATP-binding site [chemical binding]; other site 561231003275 pantoate-binding site; other site 561231003276 HXXH motif; other site 561231003277 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 561231003278 oligomerization interface [polypeptide binding]; other site 561231003279 active site 561231003280 metal binding site [ion binding]; metal-binding site 561231003281 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 561231003282 catalytic center binding site [active] 561231003283 ATP binding site [chemical binding]; other site 561231003284 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 561231003285 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 561231003286 active site 561231003287 NTP binding site [chemical binding]; other site 561231003288 metal binding triad [ion binding]; metal-binding site 561231003289 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 561231003290 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 561231003291 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 561231003292 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 561231003293 active site 561231003294 nucleotide binding site [chemical binding]; other site 561231003295 HIGH motif; other site 561231003296 KMSKS motif; other site 561231003297 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 561231003298 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 561231003299 2'-5' RNA ligase; Provisional; Region: PRK15124 561231003300 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 561231003301 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 561231003302 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 561231003303 ATP binding site [chemical binding]; other site 561231003304 putative Mg++ binding site [ion binding]; other site 561231003305 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 561231003306 nucleotide binding region [chemical binding]; other site 561231003307 ATP-binding site [chemical binding]; other site 561231003308 Helicase associated domain (HA2); Region: HA2; pfam04408 561231003309 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 561231003310 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 561231003311 Transglycosylase; Region: Transgly; pfam00912 561231003312 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 561231003313 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 561231003314 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561231003315 Walker A/P-loop; other site 561231003316 ATP binding site [chemical binding]; other site 561231003317 Q-loop/lid; other site 561231003318 ABC transporter signature motif; other site 561231003319 Walker B; other site 561231003320 D-loop; other site 561231003321 H-loop/switch region; other site 561231003322 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 561231003323 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 561231003324 siderophore binding site; other site 561231003325 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561231003326 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 561231003327 ABC-ATPase subunit interface; other site 561231003328 dimer interface [polypeptide binding]; other site 561231003329 putative PBP binding regions; other site 561231003330 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 561231003331 ABC-ATPase subunit interface; other site 561231003332 dimer interface [polypeptide binding]; other site 561231003333 putative PBP binding regions; other site 561231003334 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561231003335 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 561231003336 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231003337 DNA-binding site [nucleotide binding]; DNA binding site 561231003338 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 561231003339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231003340 homodimer interface [polypeptide binding]; other site 561231003341 catalytic residue [active] 561231003342 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561231003343 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 561231003344 putative C-terminal domain interface [polypeptide binding]; other site 561231003345 putative GSH binding site (G-site) [chemical binding]; other site 561231003346 putative dimer interface [polypeptide binding]; other site 561231003347 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 561231003348 putative N-terminal domain interface [polypeptide binding]; other site 561231003349 putative dimer interface [polypeptide binding]; other site 561231003350 putative substrate binding pocket (H-site) [chemical binding]; other site 561231003351 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 561231003352 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 561231003353 inhibitor-cofactor binding pocket; inhibition site 561231003354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231003355 catalytic residue [active] 561231003356 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 561231003357 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 561231003358 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 561231003359 cobalamin binding residues [chemical binding]; other site 561231003360 putative BtuC binding residues; other site 561231003361 dimer interface [polypeptide binding]; other site 561231003362 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 561231003363 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 561231003364 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 561231003365 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 561231003366 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 561231003367 serine endoprotease; Provisional; Region: PRK10942 561231003368 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 561231003369 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 561231003370 protein binding site [polypeptide binding]; other site 561231003371 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 561231003372 protein binding site [polypeptide binding]; other site 561231003373 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 561231003374 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 561231003375 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 561231003376 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561231003377 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231003378 substrate binding pocket [chemical binding]; other site 561231003379 membrane-bound complex binding site; other site 561231003380 hinge residues; other site 561231003381 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561231003382 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 561231003383 dimer interface [polypeptide binding]; other site 561231003384 conserved gate region; other site 561231003385 putative PBP binding loops; other site 561231003386 ABC-ATPase subunit interface; other site 561231003387 sulfate transport protein; Provisional; Region: cysT; CHL00187 561231003388 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 561231003389 dimer interface [polypeptide binding]; other site 561231003390 conserved gate region; other site 561231003391 putative PBP binding loops; other site 561231003392 ABC-ATPase subunit interface; other site 561231003393 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 561231003394 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 561231003395 Walker A/P-loop; other site 561231003396 ATP binding site [chemical binding]; other site 561231003397 Q-loop/lid; other site 561231003398 ABC transporter signature motif; other site 561231003399 Walker B; other site 561231003400 D-loop; other site 561231003401 H-loop/switch region; other site 561231003402 TOBE-like domain; Region: TOBE_3; pfam12857 561231003403 DoxX; Region: DoxX; pfam07681 561231003404 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561231003405 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231003406 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 561231003407 active site 561231003408 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561231003409 catalytic tetrad [active] 561231003410 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561231003411 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 561231003412 putative active site [active] 561231003413 putative FMN binding site [chemical binding]; other site 561231003414 putative substrate binding site [chemical binding]; other site 561231003415 putative catalytic residue [active] 561231003416 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 561231003417 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 561231003418 active site 561231003419 HIGH motif; other site 561231003420 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 561231003421 active site 561231003422 KMSKS motif; other site 561231003423 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 561231003424 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 561231003425 ligand binding site [chemical binding]; other site 561231003426 active site 561231003427 UGI interface [polypeptide binding]; other site 561231003428 catalytic site [active] 561231003429 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 561231003430 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 561231003431 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 561231003432 ATP binding site [chemical binding]; other site 561231003433 Mg++ binding site [ion binding]; other site 561231003434 motif III; other site 561231003435 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 561231003436 nucleotide binding region [chemical binding]; other site 561231003437 ATP-binding site [chemical binding]; other site 561231003438 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 561231003439 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 561231003440 S-adenosylmethionine binding site [chemical binding]; other site 561231003441 L-aspartate oxidase; Provisional; Region: PRK09077 561231003442 L-aspartate oxidase; Provisional; Region: PRK06175 561231003443 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 561231003444 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 561231003445 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561231003446 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 561231003447 DNA binding residues [nucleotide binding] 561231003448 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 561231003449 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 561231003450 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 561231003451 anti-sigma E factor; Provisional; Region: rseB; PRK09455 561231003452 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 561231003453 SoxR reducing system protein RseC; Provisional; Region: PRK10862 561231003454 GTP-binding protein LepA; Provisional; Region: PRK05433 561231003455 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 561231003456 G1 box; other site 561231003457 putative GEF interaction site [polypeptide binding]; other site 561231003458 GTP/Mg2+ binding site [chemical binding]; other site 561231003459 Switch I region; other site 561231003460 G2 box; other site 561231003461 G3 box; other site 561231003462 Switch II region; other site 561231003463 G4 box; other site 561231003464 G5 box; other site 561231003465 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 561231003466 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 561231003467 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 561231003468 signal peptidase I; Provisional; Region: PRK10861 561231003469 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 561231003470 Catalytic site [active] 561231003471 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 561231003472 ribonuclease III; Reviewed; Region: rnc; PRK00102 561231003473 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 561231003474 dimerization interface [polypeptide binding]; other site 561231003475 active site 561231003476 metal binding site [ion binding]; metal-binding site 561231003477 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 561231003478 dsRNA binding site [nucleotide binding]; other site 561231003479 GTPase Era; Reviewed; Region: era; PRK00089 561231003480 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 561231003481 G1 box; other site 561231003482 GTP/Mg2+ binding site [chemical binding]; other site 561231003483 Switch I region; other site 561231003484 G2 box; other site 561231003485 Switch II region; other site 561231003486 G3 box; other site 561231003487 G4 box; other site 561231003488 G5 box; other site 561231003489 KH domain; Region: KH_2; pfam07650 561231003490 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 561231003491 Recombination protein O N terminal; Region: RecO_N; pfam11967 561231003492 Recombination protein O C terminal; Region: RecO_C; pfam02565 561231003493 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 561231003494 active site 561231003495 hydrophilic channel; other site 561231003496 dimerization interface [polypeptide binding]; other site 561231003497 catalytic residues [active] 561231003498 active site lid [active] 561231003499 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 561231003500 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 561231003501 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 561231003502 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 561231003503 PAS domain; Region: PAS_9; pfam13426 561231003504 putative active site [active] 561231003505 heme pocket [chemical binding]; other site 561231003506 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 561231003507 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 561231003508 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231003509 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231003510 metal binding site [ion binding]; metal-binding site 561231003511 active site 561231003512 I-site; other site 561231003513 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 561231003514 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231003515 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 561231003516 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231003517 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_C39_likeD; cd02421 561231003518 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 561231003519 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561231003520 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 561231003521 Walker A/P-loop; other site 561231003522 ATP binding site [chemical binding]; other site 561231003523 Q-loop/lid; other site 561231003524 ABC transporter signature motif; other site 561231003525 Walker B; other site 561231003526 D-loop; other site 561231003527 H-loop/switch region; other site 561231003528 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 561231003529 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 561231003530 HAMP domain; Region: HAMP; pfam00672 561231003531 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231003532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231003533 metal binding site [ion binding]; metal-binding site 561231003534 active site 561231003535 I-site; other site 561231003536 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 561231003537 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 561231003538 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 561231003539 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 561231003540 putative active site [active] 561231003541 hypothetical protein; Provisional; Region: PRK11590 561231003542 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 561231003543 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 561231003544 nucleoside/Zn binding site; other site 561231003545 dimer interface [polypeptide binding]; other site 561231003546 catalytic motif [active] 561231003547 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 561231003548 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231003549 substrate binding pocket [chemical binding]; other site 561231003550 membrane-bound complex binding site; other site 561231003551 hinge residues; other site 561231003552 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 561231003553 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561231003554 catalytic residue [active] 561231003555 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 561231003556 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 561231003557 dimerization interface [polypeptide binding]; other site 561231003558 ATP binding site [chemical binding]; other site 561231003559 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 561231003560 dimerization interface [polypeptide binding]; other site 561231003561 ATP binding site [chemical binding]; other site 561231003562 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 561231003563 putative active site [active] 561231003564 catalytic triad [active] 561231003565 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561231003566 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 561231003567 dimer interface [polypeptide binding]; other site 561231003568 phosphorylation site [posttranslational modification] 561231003569 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 561231003570 ATP binding site [chemical binding]; other site 561231003571 Mg2+ binding site [ion binding]; other site 561231003572 G-X-G motif; other site 561231003573 hypothetical protein; Provisional; Region: PRK10722 561231003574 response regulator GlrR; Provisional; Region: PRK15115 561231003575 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 561231003576 active site 561231003577 phosphorylation site [posttranslational modification] 561231003578 intermolecular recognition site; other site 561231003579 dimerization interface [polypeptide binding]; other site 561231003580 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 561231003581 Walker A motif; other site 561231003582 ATP binding site [chemical binding]; other site 561231003583 Walker B motif; other site 561231003584 arginine finger; other site 561231003585 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 561231003586 Nitrogen regulatory protein P-II; Region: P-II; smart00938 561231003587 putative pectinesterase; Region: PLN02432; cl01911 561231003588 Pectinesterase; Region: Pectinesterase; pfam01095 561231003589 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 561231003590 active site 561231003591 catalytic triad [active] 561231003592 oxyanion hole [active] 561231003593 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 561231003594 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 561231003595 heme-binding site [chemical binding]; other site 561231003596 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 561231003597 FAD binding pocket [chemical binding]; other site 561231003598 FAD binding motif [chemical binding]; other site 561231003599 phosphate binding motif [ion binding]; other site 561231003600 beta-alpha-beta structure motif; other site 561231003601 NAD binding pocket [chemical binding]; other site 561231003602 Heme binding pocket [chemical binding]; other site 561231003603 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 561231003604 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 561231003605 dimer interface [polypeptide binding]; other site 561231003606 active site 561231003607 glycine-pyridoxal phosphate binding site [chemical binding]; other site 561231003608 folate binding site [chemical binding]; other site 561231003609 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 561231003610 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 561231003611 putative substrate translocation pore; other site 561231003612 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 561231003613 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 561231003614 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 561231003615 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 561231003616 putative ligand binding residues [chemical binding]; other site 561231003617 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231003618 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 561231003619 dimerization interface [polypeptide binding]; other site 561231003620 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231003621 dimer interface [polypeptide binding]; other site 561231003622 putative CheW interface [polypeptide binding]; other site 561231003623 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561231003624 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561231003625 Walker A/P-loop; other site 561231003626 ATP binding site [chemical binding]; other site 561231003627 Q-loop/lid; other site 561231003628 ABC transporter signature motif; other site 561231003629 Walker B; other site 561231003630 D-loop; other site 561231003631 H-loop/switch region; other site 561231003632 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561231003633 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 561231003634 ABC-ATPase subunit interface; other site 561231003635 dimer interface [polypeptide binding]; other site 561231003636 putative PBP binding regions; other site 561231003637 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 561231003638 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 561231003639 intersubunit interface [polypeptide binding]; other site 561231003640 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 561231003641 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 561231003642 active site 561231003643 dimerization interface [polypeptide binding]; other site 561231003644 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 561231003645 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561231003646 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 561231003647 Rrf2 family protein; Region: rrf2_super; TIGR00738 561231003648 cysteine desulfurase; Provisional; Region: PRK14012 561231003649 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 561231003650 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561231003651 catalytic residue [active] 561231003652 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 561231003653 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 561231003654 trimerization site [polypeptide binding]; other site 561231003655 active site 561231003656 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 561231003657 co-chaperone HscB; Provisional; Region: hscB; PRK05014 561231003658 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 561231003659 HSP70 interaction site [polypeptide binding]; other site 561231003660 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 561231003661 chaperone protein HscA; Provisional; Region: hscA; PRK05183 561231003662 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 561231003663 nucleotide binding site [chemical binding]; other site 561231003664 putative NEF/HSP70 interaction site [polypeptide binding]; other site 561231003665 SBD interface [polypeptide binding]; other site 561231003666 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 561231003667 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 561231003668 catalytic loop [active] 561231003669 iron binding site [ion binding]; other site 561231003670 hypothetical protein; Provisional; Region: PRK10721 561231003671 aminopeptidase B; Provisional; Region: PRK05015 561231003672 Peptidase; Region: DUF3663; pfam12404 561231003673 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 561231003674 interface (dimer of trimers) [polypeptide binding]; other site 561231003675 Substrate-binding/catalytic site; other site 561231003676 Zn-binding sites [ion binding]; other site 561231003677 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 561231003678 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 561231003679 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 561231003680 active site residue [active] 561231003681 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 561231003682 active site residue [active] 561231003683 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 561231003684 active site 561231003685 multimer interface [polypeptide binding]; other site 561231003686 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 561231003687 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 561231003688 FeS/SAM binding site; other site 561231003689 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 561231003690 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 561231003691 binding surface 561231003692 TPR motif; other site 561231003693 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 561231003694 binding surface 561231003695 TPR motif; other site 561231003696 cytoskeletal protein RodZ; Provisional; Region: PRK10856 561231003697 Helix-turn-helix domain; Region: HTH_25; pfam13413 561231003698 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 561231003699 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 561231003700 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 561231003701 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 561231003702 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 561231003703 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 561231003704 dimer interface [polypeptide binding]; other site 561231003705 motif 1; other site 561231003706 active site 561231003707 motif 2; other site 561231003708 motif 3; other site 561231003709 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 561231003710 anticodon binding site; other site 561231003711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 561231003712 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 561231003713 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 561231003714 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 561231003715 Trp docking motif [polypeptide binding]; other site 561231003716 GTP-binding protein Der; Reviewed; Region: PRK00093 561231003717 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 561231003718 G1 box; other site 561231003719 GTP/Mg2+ binding site [chemical binding]; other site 561231003720 Switch I region; other site 561231003721 G2 box; other site 561231003722 Switch II region; other site 561231003723 G3 box; other site 561231003724 G4 box; other site 561231003725 G5 box; other site 561231003726 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 561231003727 G1 box; other site 561231003728 GTP/Mg2+ binding site [chemical binding]; other site 561231003729 Switch I region; other site 561231003730 G2 box; other site 561231003731 G3 box; other site 561231003732 Switch II region; other site 561231003733 G4 box; other site 561231003734 G5 box; other site 561231003735 Predicted permeases [General function prediction only]; Region: COG0679 561231003736 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 561231003737 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 561231003738 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 561231003739 active site 561231003740 Zn binding site [ion binding]; other site 561231003741 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 561231003742 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 561231003743 generic binding surface II; other site 561231003744 generic binding surface I; other site 561231003745 GMP synthase; Reviewed; Region: guaA; PRK00074 561231003746 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 561231003747 AMP/PPi binding site [chemical binding]; other site 561231003748 candidate oxyanion hole; other site 561231003749 catalytic triad [active] 561231003750 potential glutamine specificity residues [chemical binding]; other site 561231003751 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 561231003752 ATP Binding subdomain [chemical binding]; other site 561231003753 Ligand Binding sites [chemical binding]; other site 561231003754 Dimerization subdomain; other site 561231003755 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 561231003756 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 561231003757 ATP binding site [chemical binding]; other site 561231003758 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 561231003759 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561231003760 active site 561231003761 catalytic tetrad [active] 561231003762 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 561231003763 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 561231003764 putative NAD(P) binding site [chemical binding]; other site 561231003765 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231003766 Sel1-like repeats; Region: SEL1; smart00671 561231003767 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 561231003768 Sel1-like repeats; Region: SEL1; smart00671 561231003769 Sel1-like repeats; Region: SEL1; smart00671 561231003770 YCII-related domain; Region: YCII; cl00999 561231003771 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 561231003772 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 561231003773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231003774 Coenzyme A binding pocket [chemical binding]; other site 561231003775 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 561231003776 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 561231003777 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561231003778 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 561231003779 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 561231003780 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 561231003781 NAD binding site [chemical binding]; other site 561231003782 substrate binding site [chemical binding]; other site 561231003783 catalytic Zn binding site [ion binding]; other site 561231003784 tetramer interface [polypeptide binding]; other site 561231003785 structural Zn binding site [ion binding]; other site 561231003786 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231003787 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231003788 metal binding site [ion binding]; metal-binding site 561231003789 active site 561231003790 I-site; other site 561231003791 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 561231003792 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 561231003793 putative NAD(P) binding site [chemical binding]; other site 561231003794 putative substrate binding site [chemical binding]; other site 561231003795 catalytic Zn binding site [ion binding]; other site 561231003796 structural Zn binding site [ion binding]; other site 561231003797 dimer interface [polypeptide binding]; other site 561231003798 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 561231003799 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 561231003800 substrate binding site [chemical binding]; other site 561231003801 ligand binding site [chemical binding]; other site 561231003802 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 561231003803 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 561231003804 substrate binding site [chemical binding]; other site 561231003805 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 561231003806 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 561231003807 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 561231003808 transcriptional activator TtdR; Provisional; Region: PRK09801 561231003809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231003810 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 561231003811 dimerization interface [polypeptide binding]; other site 561231003812 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 561231003813 substrate binding site [chemical binding]; other site 561231003814 multimerization interface [polypeptide binding]; other site 561231003815 ATP binding site [chemical binding]; other site 561231003816 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 561231003817 dimer interface [polypeptide binding]; other site 561231003818 substrate binding site [chemical binding]; other site 561231003819 ATP binding site [chemical binding]; other site 561231003820 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 561231003821 lipid kinase; Reviewed; Region: PRK13054 561231003822 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 561231003823 putative protease; Provisional; Region: PRK15452 561231003824 Peptidase family U32; Region: Peptidase_U32; pfam01136 561231003825 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 561231003826 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 561231003827 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 561231003828 putative dimer interface [polypeptide binding]; other site 561231003829 N-terminal domain interface [polypeptide binding]; other site 561231003830 putative substrate binding pocket (H-site) [chemical binding]; other site 561231003831 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 561231003832 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 561231003833 Coenzyme A binding pocket [chemical binding]; other site 561231003834 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 561231003835 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 561231003836 active site 561231003837 phosphorylation site [posttranslational modification] 561231003838 intermolecular recognition site; other site 561231003839 dimerization interface [polypeptide binding]; other site 561231003840 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 561231003841 DNA binding site [nucleotide binding] 561231003842 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 561231003843 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 561231003844 dimerization interface [polypeptide binding]; other site 561231003845 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 561231003846 dimer interface [polypeptide binding]; other site 561231003847 phosphorylation site [posttranslational modification] 561231003848 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 561231003849 ATP binding site [chemical binding]; other site 561231003850 Mg2+ binding site [ion binding]; other site 561231003851 G-X-G motif; other site 561231003852 putative transporter; Provisional; Region: PRK10504 561231003853 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 561231003854 putative substrate translocation pore; other site 561231003855 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 561231003856 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 561231003857 Protein export membrane protein; Region: SecD_SecF; cl14618 561231003858 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 561231003859 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231003860 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231003861 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 561231003862 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 561231003863 Nucleoside recognition; Region: Gate; pfam07670 561231003864 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 561231003865 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 561231003866 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561231003867 active site 561231003868 catalytic tetrad [active] 561231003869 D-lactate dehydrogenase; Provisional; Region: PRK11183 561231003870 FAD binding domain; Region: FAD_binding_4; pfam01565 561231003871 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 561231003872 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 561231003873 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 561231003874 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 561231003875 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 561231003876 Arabinogalactan endo-1,4-beta-galactosidase [Carbohydrate transport and metabolism]; Region: COG3867 561231003877 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561231003878 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 561231003879 dimer interface [polypeptide binding]; other site 561231003880 conserved gate region; other site 561231003881 putative PBP binding loops; other site 561231003882 ABC-ATPase subunit interface; other site 561231003883 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 561231003884 dimer interface [polypeptide binding]; other site 561231003885 conserved gate region; other site 561231003886 ABC-ATPase subunit interface; other site 561231003887 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 561231003888 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561231003889 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561231003890 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561231003891 Walker A/P-loop; other site 561231003892 ATP binding site [chemical binding]; other site 561231003893 Q-loop/lid; other site 561231003894 ABC transporter signature motif; other site 561231003895 Walker B; other site 561231003896 D-loop; other site 561231003897 H-loop/switch region; other site 561231003898 TOBE domain; Region: TOBE_2; pfam08402 561231003899 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 561231003900 trimer interface; other site 561231003901 sugar binding site [chemical binding]; other site 561231003902 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 561231003903 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231003904 DNA binding site [nucleotide binding] 561231003905 domain linker motif; other site 561231003906 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 561231003907 dimerization interface (closed form) [polypeptide binding]; other site 561231003908 ligand binding site [chemical binding]; other site 561231003909 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 561231003910 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 561231003911 dimer interface [polypeptide binding]; other site 561231003912 active site 561231003913 galactokinase; Provisional; Region: PRK05101 561231003914 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 561231003915 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 561231003916 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 561231003917 MgtE intracellular N domain; Region: MgtE_N; smart00924 561231003918 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 561231003919 Divalent cation transporter; Region: MgtE; cl00786 561231003920 Transcriptional regulators [Transcription]; Region: MarR; COG1846 561231003921 MarR family; Region: MarR; pfam01047 561231003922 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 561231003923 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 561231003924 Putative motility protein; Region: YjfB_motility; pfam14070 561231003925 exopolyphosphatase; Provisional; Region: PRK10854 561231003926 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561231003927 nucleotide binding site [chemical binding]; other site 561231003928 polyphosphate kinase; Provisional; Region: PRK05443 561231003929 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 561231003930 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 561231003931 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 561231003932 domain interface [polypeptide binding]; other site 561231003933 active site 561231003934 catalytic site [active] 561231003935 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 561231003936 domain interface [polypeptide binding]; other site 561231003937 active site 561231003938 catalytic site [active] 561231003939 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 561231003940 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 561231003941 dimer interface [polypeptide binding]; other site 561231003942 conserved gate region; other site 561231003943 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 561231003944 dimer interface [polypeptide binding]; other site 561231003945 conserved gate region; other site 561231003946 putative PBP binding loops; other site 561231003947 ABC-ATPase subunit interface; other site 561231003948 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 561231003949 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 561231003950 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 561231003951 dimer interface [polypeptide binding]; other site 561231003952 conserved gate region; other site 561231003953 ABC-ATPase subunit interface; other site 561231003954 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 561231003955 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 561231003956 Walker A/P-loop; other site 561231003957 ATP binding site [chemical binding]; other site 561231003958 Q-loop/lid; other site 561231003959 ABC transporter signature motif; other site 561231003960 Walker B; other site 561231003961 D-loop; other site 561231003962 H-loop/switch region; other site 561231003963 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 561231003964 non-specific DNA binding site [nucleotide binding]; other site 561231003965 salt bridge; other site 561231003966 sequence-specific DNA binding site [nucleotide binding]; other site 561231003967 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 561231003968 serine transporter; Region: stp; TIGR00814 561231003969 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 561231003970 ATP-grasp domain; Region: ATP-grasp; pfam02222 561231003971 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 561231003972 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 561231003973 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561231003974 putative active site [active] 561231003975 putative metal binding site [ion binding]; other site 561231003976 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 561231003977 substrate binding site [chemical binding]; other site 561231003978 DoxX; Region: DoxX; pfam07681 561231003979 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 561231003980 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 561231003981 active site 561231003982 HIGH motif; other site 561231003983 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 561231003984 KMSKS motif; other site 561231003985 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 561231003986 tRNA binding surface [nucleotide binding]; other site 561231003987 anticodon binding site; other site 561231003988 ribosome-associated protein; Provisional; Region: PRK11507 561231003989 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 561231003990 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 561231003991 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 561231003992 homodimer interface [polypeptide binding]; other site 561231003993 NADP binding site [chemical binding]; other site 561231003994 substrate binding site [chemical binding]; other site 561231003995 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231003996 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231003997 metal binding site [ion binding]; metal-binding site 561231003998 active site 561231003999 I-site; other site 561231004000 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 561231004001 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 561231004002 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 561231004003 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 561231004004 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 561231004005 inhibitor-cofactor binding pocket; inhibition site 561231004006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231004007 catalytic residue [active] 561231004008 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 561231004009 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 561231004010 Ligand binding site; other site 561231004011 Putative Catalytic site; other site 561231004012 DXD motif; other site 561231004013 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 561231004014 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 561231004015 active site 561231004016 substrate binding site [chemical binding]; other site 561231004017 cosubstrate binding site; other site 561231004018 catalytic site [active] 561231004019 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 561231004020 active site 561231004021 hexamer interface [polypeptide binding]; other site 561231004022 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 561231004023 NAD binding site [chemical binding]; other site 561231004024 substrate binding site [chemical binding]; other site 561231004025 active site 561231004026 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 561231004027 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 561231004028 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 561231004029 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 561231004030 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 561231004031 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 561231004032 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561231004033 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 561231004034 Walker A/P-loop; other site 561231004035 ATP binding site [chemical binding]; other site 561231004036 Q-loop/lid; other site 561231004037 ABC transporter signature motif; other site 561231004038 Walker B; other site 561231004039 D-loop; other site 561231004040 H-loop/switch region; other site 561231004041 TOBE domain; Region: TOBE_2; pfam08402 561231004042 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561231004043 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 561231004044 dimer interface [polypeptide binding]; other site 561231004045 conserved gate region; other site 561231004046 ABC-ATPase subunit interface; other site 561231004047 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 561231004048 dimer interface [polypeptide binding]; other site 561231004049 conserved gate region; other site 561231004050 putative PBP binding loops; other site 561231004051 ABC-ATPase subunit interface; other site 561231004052 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561231004053 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561231004054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231004055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231004056 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 561231004057 putative effector binding pocket; other site 561231004058 putative dimerization interface [polypeptide binding]; other site 561231004059 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 561231004060 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 561231004061 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 561231004062 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 561231004063 acyl-activating enzyme (AAE) consensus motif; other site 561231004064 AMP binding site [chemical binding]; other site 561231004065 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561231004066 methionine synthase; Provisional; Region: PRK01207 561231004067 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 561231004068 substrate binding site [chemical binding]; other site 561231004069 THF binding site; other site 561231004070 zinc-binding site [ion binding]; other site 561231004071 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 561231004072 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 561231004073 nudix motif; other site 561231004074 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561231004075 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231004076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 561231004077 Transposase; Region: HTH_Tnp_1; pfam01527 561231004078 Poxvirus trans-activator protein A1 C-terminal; Region: Pox_TAA1; pfam03295 561231004079 integrase; Provisional; Region: PRK09692 561231004080 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231004081 active site 561231004082 Int/Topo IB signature motif; other site 561231004083 Methyltransferase domain; Region: Methyltransf_27; pfam13708 561231004084 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 561231004085 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 561231004086 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 561231004087 MPN+ (JAMM) motif; other site 561231004088 Zinc-binding site [ion binding]; other site 561231004089 Herpesvirus Glycoprotein B; Region: Glycoprotein_B; pfam00606 561231004090 DNA-binding site [nucleotide binding]; DNA binding site 561231004091 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 561231004092 Stage III sporulation protein D; Region: SpoIIID; cl17560 561231004093 WYL domain; Region: WYL; pfam13280 561231004094 Predicted GTPase [General function prediction only]; Region: COG3596 561231004095 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231004096 YfjP GTPase; Region: YfjP; cd11383 561231004097 G1 box; other site 561231004098 Walker A/P-loop; other site 561231004099 GTP/Mg2+ binding site [chemical binding]; other site 561231004100 ATP binding site [chemical binding]; other site 561231004101 Switch I region; other site 561231004102 G2 box; other site 561231004103 Switch II region; other site 561231004104 G3 box; other site 561231004105 G4 box; other site 561231004106 G5 box; other site 561231004107 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 561231004108 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 561231004109 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 561231004110 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 561231004111 non-specific DNA binding site [nucleotide binding]; other site 561231004112 salt bridge; other site 561231004113 sequence-specific DNA binding site [nucleotide binding]; other site 561231004114 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 561231004115 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 561231004116 putative active site [active] 561231004117 putative NTP binding site [chemical binding]; other site 561231004118 putative nucleic acid binding site [nucleotide binding]; other site 561231004119 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 561231004120 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 561231004121 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 561231004122 ATP binding site [chemical binding]; other site 561231004123 substrate interface [chemical binding]; other site 561231004124 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 561231004125 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 561231004126 Prokaryotic E2 family E; Region: Prok-E2_E; pfam14462 561231004127 Adenosine deaminase z-alpha domain; Region: z-alpha; cl02659 561231004128 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 561231004129 integrase; Provisional; Region: PRK09692 561231004130 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231004131 active site 561231004132 Int/Topo IB signature motif; other site 561231004133 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 561231004134 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 561231004135 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561231004136 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 561231004137 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 561231004138 homodimer interface [polypeptide binding]; other site 561231004139 substrate-cofactor binding pocket; other site 561231004140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231004141 catalytic residue [active] 561231004142 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 561231004143 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 561231004144 active site 561231004145 aminotransferase; Validated; Region: PRK08175 561231004146 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 561231004147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231004148 homodimer interface [polypeptide binding]; other site 561231004149 catalytic residue [active] 561231004150 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 561231004151 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 561231004152 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 561231004153 Interdomain contacts; other site 561231004154 Cytokine receptor motif; other site 561231004155 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 561231004156 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 561231004157 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 561231004158 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 561231004159 type II secretion system protein D; Region: type_II_gspD; TIGR02517 561231004160 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561231004161 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561231004162 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561231004163 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561231004164 type II secretion system protein E; Region: type_II_gspE; TIGR02533 561231004165 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 561231004166 Walker A motif; other site 561231004167 ATP binding site [chemical binding]; other site 561231004168 Walker B motif; other site 561231004169 type II secretion system protein F; Region: GspF; TIGR02120 561231004170 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561231004171 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561231004172 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 561231004173 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 561231004174 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 561231004175 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 561231004176 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 561231004177 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 561231004178 type II secretion system protein I; Region: gspI; TIGR01707 561231004179 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 561231004180 type II secretion system protein J; Region: gspJ; TIGR01711 561231004181 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 561231004182 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 561231004183 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 561231004184 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 561231004185 GspL periplasmic domain; Region: GspL_C; pfam12693 561231004186 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 561231004187 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 561231004188 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 561231004189 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 561231004190 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 561231004191 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 561231004192 putative ligand binding residues [chemical binding]; other site 561231004193 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 561231004194 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561231004195 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 561231004196 ABC-ATPase subunit interface; other site 561231004197 dimer interface [polypeptide binding]; other site 561231004198 putative PBP binding regions; other site 561231004199 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561231004200 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231004201 Walker A/P-loop; other site 561231004202 ATP binding site [chemical binding]; other site 561231004203 Q-loop/lid; other site 561231004204 ABC transporter signature motif; other site 561231004205 Walker B; other site 561231004206 D-loop; other site 561231004207 H-loop/switch region; other site 561231004208 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561231004209 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 561231004210 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 561231004211 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 561231004212 ATP binding site [chemical binding]; other site 561231004213 putative Mg++ binding site [ion binding]; other site 561231004214 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 561231004215 nucleotide binding region [chemical binding]; other site 561231004216 ATP-binding site [chemical binding]; other site 561231004217 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 561231004218 putative RNA binding site [nucleotide binding]; other site 561231004219 Serine hydrolase; Region: Ser_hydrolase; pfam06821 561231004220 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561231004221 Necrosis inducing protein (NPP1); Region: NPP1; pfam05630 561231004222 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 561231004223 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 561231004224 malate:quinone oxidoreductase; Validated; Region: PRK05257 561231004225 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 561231004226 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231004227 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231004228 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561231004229 putative effector binding pocket; other site 561231004230 dimerization interface [polypeptide binding]; other site 561231004231 short chain dehydrogenase; Provisional; Region: PRK06500 561231004232 classical (c) SDRs; Region: SDR_c; cd05233 561231004233 NAD(P) binding site [chemical binding]; other site 561231004234 active site 561231004235 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 561231004236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 561231004237 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 561231004238 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 561231004239 dimer interface [polypeptide binding]; other site 561231004240 active site 561231004241 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 561231004242 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 561231004243 substrate binding site [chemical binding]; other site 561231004244 oxyanion hole (OAH) forming residues; other site 561231004245 trimer interface [polypeptide binding]; other site 561231004246 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 561231004247 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 561231004248 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 561231004249 Spore Coat Protein U domain; Region: SCPU; pfam05229 561231004250 Spore Coat Protein U domain; Region: SCPU; pfam05229 561231004251 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 561231004252 PapC N-terminal domain; Region: PapC_N; pfam13954 561231004253 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 561231004254 PapC C-terminal domain; Region: PapC_C; pfam13953 561231004255 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 561231004256 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 561231004257 Spore Coat Protein U domain; Region: SCPU; pfam05229 561231004258 Spore Coat Protein U domain; Region: SCPU; pfam05229 561231004259 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 561231004260 catalytic core [active] 561231004261 hypothetical protein; Provisional; Region: PRK04946 561231004262 Smr domain; Region: Smr; pfam01713 561231004263 HemK family putative methylases; Region: hemK_fam; TIGR00536 561231004264 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 561231004265 S-adenosylmethionine binding site [chemical binding]; other site 561231004266 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 561231004267 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 561231004268 Tetramer interface [polypeptide binding]; other site 561231004269 active site 561231004270 FMN-binding site [chemical binding]; other site 561231004271 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 561231004272 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 561231004273 hypothetical protein; Provisional; Region: PRK10621 561231004274 Predicted permeases [General function prediction only]; Region: COG0730 561231004275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 561231004276 YfcL protein; Region: YfcL; pfam08891 561231004277 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 561231004278 Uncharacterized conserved protein [Function unknown]; Region: COG4121 561231004279 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 561231004280 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 561231004281 dimer interface [polypeptide binding]; other site 561231004282 active site 561231004283 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 561231004284 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 561231004285 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561231004286 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 561231004287 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 561231004288 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561231004289 EamA-like transporter family; Region: EamA; pfam00892 561231004290 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 561231004291 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 561231004292 ligand binding site [chemical binding]; other site 561231004293 NAD binding site [chemical binding]; other site 561231004294 catalytic site [active] 561231004295 homodimer interface [polypeptide binding]; other site 561231004296 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 561231004297 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 561231004298 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 561231004299 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 561231004300 dimerization interface 3.5A [polypeptide binding]; other site 561231004301 active site 561231004302 hypothetical protein; Provisional; Region: PRK10847 561231004303 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561231004304 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 561231004305 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 561231004306 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 561231004307 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561231004308 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561231004309 cell division protein DedD; Provisional; Region: PRK11633 561231004310 Sporulation related domain; Region: SPOR; pfam05036 561231004311 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 561231004312 colicin V production protein; Provisional; Region: PRK10845 561231004313 amidophosphoribosyltransferase; Provisional; Region: PRK09246 561231004314 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 561231004315 active site 561231004316 tetramer interface [polypeptide binding]; other site 561231004317 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561231004318 active site 561231004319 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 561231004320 Flavoprotein; Region: Flavoprotein; pfam02441 561231004321 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 561231004322 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231004323 substrate binding pocket [chemical binding]; other site 561231004324 membrane-bound complex binding site; other site 561231004325 hinge residues; other site 561231004326 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231004327 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 561231004328 dimer interface [polypeptide binding]; other site 561231004329 conserved gate region; other site 561231004330 putative PBP binding loops; other site 561231004331 ABC-ATPase subunit interface; other site 561231004332 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231004333 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 561231004334 dimer interface [polypeptide binding]; other site 561231004335 conserved gate region; other site 561231004336 putative PBP binding loops; other site 561231004337 ABC-ATPase subunit interface; other site 561231004338 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 561231004339 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561231004340 Walker A/P-loop; other site 561231004341 ATP binding site [chemical binding]; other site 561231004342 Q-loop/lid; other site 561231004343 ABC transporter signature motif; other site 561231004344 Walker B; other site 561231004345 D-loop; other site 561231004346 H-loop/switch region; other site 561231004347 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 561231004348 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 561231004349 putative NAD(P) binding site [chemical binding]; other site 561231004350 putative active site [active] 561231004351 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 561231004352 homooctamer interface [polypeptide binding]; other site 561231004353 active site 561231004354 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 561231004355 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 561231004356 C-terminal domain interface [polypeptide binding]; other site 561231004357 GSH binding site (G-site) [chemical binding]; other site 561231004358 dimer interface [polypeptide binding]; other site 561231004359 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 561231004360 N-terminal domain interface [polypeptide binding]; other site 561231004361 putative dimer interface [polypeptide binding]; other site 561231004362 active site 561231004363 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 561231004364 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561231004365 active site 561231004366 metal binding site [ion binding]; metal-binding site 561231004367 homotetramer interface [polypeptide binding]; other site 561231004368 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 561231004369 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_38; cd04697 561231004370 nudix motif; other site 561231004371 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 561231004372 phosphate acetyltransferase; Reviewed; Region: PRK05632 561231004373 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 561231004374 DRTGG domain; Region: DRTGG; pfam07085 561231004375 phosphate acetyltransferase; Region: pta; TIGR00651 561231004376 propionate/acetate kinase; Provisional; Region: PRK12379 561231004377 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 561231004378 hypothetical protein; Provisional; Region: PRK01816 561231004379 hypothetical protein; Validated; Region: PRK05445 561231004380 putative phosphatase; Provisional; Region: PRK11587 561231004381 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 561231004382 motif II; other site 561231004383 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 561231004384 transmembrane helices; other site 561231004385 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 561231004386 TrkA-C domain; Region: TrkA_C; pfam02080 561231004387 TrkA-C domain; Region: TrkA_C; pfam02080 561231004388 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 561231004389 5'-nucleotidase; Provisional; Region: PRK03826 561231004390 aminotransferase AlaT; Validated; Region: PRK09265 561231004391 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 561231004392 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231004393 homodimer interface [polypeptide binding]; other site 561231004394 catalytic residue [active] 561231004395 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 561231004396 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231004397 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 561231004398 putative dimerization interface [polypeptide binding]; other site 561231004399 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 561231004400 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 561231004401 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 561231004402 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 561231004403 NADH dehydrogenase subunit D; Validated; Region: PRK06075 561231004404 NADH dehydrogenase subunit E; Validated; Region: PRK07539 561231004405 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 561231004406 putative dimer interface [polypeptide binding]; other site 561231004407 [2Fe-2S] cluster binding site [ion binding]; other site 561231004408 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 561231004409 SLBB domain; Region: SLBB; pfam10531 561231004410 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 561231004411 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 561231004412 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 561231004413 catalytic loop [active] 561231004414 iron binding site [ion binding]; other site 561231004415 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 561231004416 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 561231004417 [4Fe-4S] binding site [ion binding]; other site 561231004418 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 561231004419 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 561231004420 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 561231004421 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 561231004422 4Fe-4S binding domain; Region: Fer4; pfam00037 561231004423 4Fe-4S binding domain; Region: Fer4; pfam00037 561231004424 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 561231004425 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 561231004426 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 561231004427 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 561231004428 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 561231004429 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561231004430 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 561231004431 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561231004432 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 561231004433 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561231004434 hypothetical protein; Provisional; Region: PRK10404 561231004435 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 561231004436 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 561231004437 Ca binding site [ion binding]; other site 561231004438 active site 561231004439 catalytic site [active] 561231004440 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 561231004441 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 561231004442 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561231004443 active site turn [active] 561231004444 phosphorylation site [posttranslational modification] 561231004445 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561231004446 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561231004447 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 561231004448 putative substrate translocation pore; other site 561231004449 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 561231004450 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 561231004451 FeS/SAM binding site; other site 561231004452 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 561231004453 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561231004454 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 561231004455 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 561231004456 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 561231004457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231004458 Walker A/P-loop; other site 561231004459 ATP binding site [chemical binding]; other site 561231004460 Q-loop/lid; other site 561231004461 ABC transporter signature motif; other site 561231004462 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561231004463 Walker B; other site 561231004464 D-loop; other site 561231004465 H-loop/switch region; other site 561231004466 ABC transporter; Region: ABC_tran_2; pfam12848 561231004467 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561231004468 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 561231004469 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 561231004470 N-terminal plug; other site 561231004471 ligand-binding site [chemical binding]; other site 561231004472 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 561231004473 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 561231004474 FeS/SAM binding site; other site 561231004475 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 561231004476 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 561231004477 NADH(P)-binding; Region: NAD_binding_10; pfam13460 561231004478 NAD(P) binding site [chemical binding]; other site 561231004479 putative active site [active] 561231004480 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 561231004481 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 561231004482 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 561231004483 catalytic triad [active] 561231004484 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 561231004485 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231004486 DNA-binding site [nucleotide binding]; DNA binding site 561231004487 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 561231004488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231004489 homodimer interface [polypeptide binding]; other site 561231004490 catalytic residue [active] 561231004491 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 561231004492 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 561231004493 Domain of unknown function (DUF202); Region: DUF202; pfam02656 561231004494 Domain of unknown function (DUF202); Region: DUF202; cl09954 561231004495 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 561231004496 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 561231004497 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 561231004498 putative active site [active] 561231004499 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 561231004500 active site 561231004501 catalytic residues [active] 561231004502 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 561231004503 Sulfatase; Region: Sulfatase; cl17466 561231004504 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 561231004505 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561231004506 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561231004507 active site turn [active] 561231004508 phosphorylation site [posttranslational modification] 561231004509 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 561231004510 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 561231004511 FeS/SAM binding site; other site 561231004512 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 561231004513 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 561231004514 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 561231004515 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 561231004516 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 561231004517 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 561231004518 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 561231004519 Phage Tail Collar Domain; Region: Collar; pfam07484 561231004520 Nitrate and nitrite sensing; Region: NIT; pfam08376 561231004521 ANTAR domain; Region: ANTAR; pfam03861 561231004522 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561231004523 NMT1-like family; Region: NMT1_2; pfam13379 561231004524 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561231004525 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 561231004526 dimer interface [polypeptide binding]; other site 561231004527 conserved gate region; other site 561231004528 putative PBP binding loops; other site 561231004529 ABC-ATPase subunit interface; other site 561231004530 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561231004531 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561231004532 Walker A/P-loop; other site 561231004533 ATP binding site [chemical binding]; other site 561231004534 Q-loop/lid; other site 561231004535 ABC transporter signature motif; other site 561231004536 Walker B; other site 561231004537 D-loop; other site 561231004538 H-loop/switch region; other site 561231004539 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 561231004540 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231004541 nitrite reductase subunit NirD; Provisional; Region: PRK14989 561231004542 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231004543 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561231004544 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 561231004545 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 561231004546 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 561231004547 [4Fe-4S] binding site [ion binding]; other site 561231004548 molybdopterin cofactor binding site; other site 561231004549 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 561231004550 molybdopterin cofactor binding site; other site 561231004551 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 561231004552 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 561231004553 active site 561231004554 SAM binding site [chemical binding]; other site 561231004555 homodimer interface [polypeptide binding]; other site 561231004556 hypothetical protein; Provisional; Region: PRK09956 561231004557 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 561231004558 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 561231004559 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 561231004560 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 561231004561 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 561231004562 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 561231004563 Cupin domain; Region: Cupin_2; cl17218 561231004564 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 561231004565 dimerization interface [polypeptide binding]; other site 561231004566 putative DNA binding site [nucleotide binding]; other site 561231004567 putative Zn2+ binding site [ion binding]; other site 561231004568 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561231004569 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 561231004570 active site 561231004571 FMN binding site [chemical binding]; other site 561231004572 substrate binding site [chemical binding]; other site 561231004573 homotetramer interface [polypeptide binding]; other site 561231004574 catalytic residue [active] 561231004575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 561231004576 SnoaL-like domain; Region: SnoaL_2; pfam12680 561231004577 galactonate dehydratase; Provisional; Region: PRK14017 561231004578 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 561231004579 active site pocket [active] 561231004580 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 561231004581 high affinity sulphate transporter 1; Region: sulP; TIGR00815 561231004582 Sulfate transporter family; Region: Sulfate_transp; pfam00916 561231004583 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 561231004584 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 561231004585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561231004586 NAD(P) binding site [chemical binding]; other site 561231004587 active site 561231004588 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 561231004589 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561231004590 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231004591 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 561231004592 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231004593 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231004594 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 561231004595 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 561231004596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231004597 Coenzyme A binding pocket [chemical binding]; other site 561231004598 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 561231004599 ACT domain-containing protein [General function prediction only]; Region: COG4747 561231004600 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 561231004601 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 561231004602 dimerization interface [polypeptide binding]; other site 561231004603 putative DNA binding site [nucleotide binding]; other site 561231004604 putative Zn2+ binding site [ion binding]; other site 561231004605 SnoaL-like domain; Region: SnoaL_2; pfam12680 561231004606 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 561231004607 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231004608 Conjugal transfer protein TraD; Region: TraD; pfam06412 561231004609 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 561231004610 putative transposase OrfB; Reviewed; Region: PHA02517 561231004611 HTH-like domain; Region: HTH_21; pfam13276 561231004612 Integrase core domain; Region: rve; pfam00665 561231004613 Integrase core domain; Region: rve_3; pfam13683 561231004614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 561231004615 Transposase; Region: HTH_Tnp_1; pfam01527 561231004616 integrase; Provisional; Region: PRK09692 561231004617 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231004618 active site 561231004619 Int/Topo IB signature motif; other site 561231004620 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 561231004621 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231004622 anti-RssB factor; Provisional; Region: PRK10244 561231004623 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 561231004624 hypothetical protein; Provisional; Region: PRK10613 561231004625 response regulator; Provisional; Region: PRK09483 561231004626 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 561231004627 active site 561231004628 phosphorylation site [posttranslational modification] 561231004629 intermolecular recognition site; other site 561231004630 dimerization interface [polypeptide binding]; other site 561231004631 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 561231004632 DNA binding residues [nucleotide binding] 561231004633 dimerization interface [polypeptide binding]; other site 561231004634 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 561231004635 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 561231004636 GIY-YIG motif/motif A; other site 561231004637 active site 561231004638 catalytic site [active] 561231004639 putative DNA binding site [nucleotide binding]; other site 561231004640 metal binding site [ion binding]; metal-binding site 561231004641 UvrB/uvrC motif; Region: UVR; pfam02151 561231004642 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 561231004643 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 561231004644 integrase; Provisional; Region: PRK09692 561231004645 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231004646 active site 561231004647 Int/Topo IB signature motif; other site 561231004648 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 561231004649 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 561231004650 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 561231004651 ATP binding site [chemical binding]; other site 561231004652 putative Mg++ binding site [ion binding]; other site 561231004653 helicase superfamily c-terminal domain; Region: HELICc; smart00490 561231004654 nucleotide binding region [chemical binding]; other site 561231004655 ATP-binding site [chemical binding]; other site 561231004656 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 561231004657 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561231004658 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561231004659 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561231004660 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561231004661 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561231004662 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561231004663 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 561231004664 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 561231004665 PAAR motif; Region: PAAR_motif; pfam05488 561231004666 RHS Repeat; Region: RHS_repeat; pfam05593 561231004667 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561231004668 RHS Repeat; Region: RHS_repeat; pfam05593 561231004669 RHS Repeat; Region: RHS_repeat; pfam05593 561231004670 RHS Repeat; Region: RHS_repeat; pfam05593 561231004671 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 561231004672 RHS Repeat; Region: RHS_repeat; pfam05593 561231004673 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561231004674 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 561231004675 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 561231004676 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 561231004677 Walker A motif; other site 561231004678 ATP binding site [chemical binding]; other site 561231004679 Walker B motif; other site 561231004680 arginine finger; other site 561231004681 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 561231004682 Putative helicase; Region: TraI_2; pfam07514 561231004683 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 561231004684 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 561231004685 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 561231004686 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 561231004687 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 561231004688 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 561231004689 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 561231004690 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 561231004691 catalytic residues [active] 561231004692 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 561231004693 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 561231004694 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 561231004695 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 561231004696 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 561231004697 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 561231004698 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 561231004699 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 561231004700 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 561231004701 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 561231004702 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 561231004703 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 561231004704 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 561231004705 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561231004706 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 561231004707 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561231004708 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561231004709 Ion channel; Region: Ion_trans_2; pfam07885 561231004710 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 561231004711 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 561231004712 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 561231004713 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 561231004714 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 561231004715 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 561231004716 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 561231004717 Predicted ATPase [General function prediction only]; Region: COG4637 561231004718 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231004719 Walker A/P-loop; other site 561231004720 ATP binding site [chemical binding]; other site 561231004721 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 561231004722 putative active site [active] 561231004723 putative metal-binding site [ion binding]; other site 561231004724 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 561231004725 Part of AAA domain; Region: AAA_19; pfam13245 561231004726 Family description; Region: UvrD_C_2; pfam13538 561231004727 DEAD-like helicases superfamily; Region: DEXDc; smart00487 561231004728 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 561231004729 ATP binding site [chemical binding]; other site 561231004730 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 561231004731 nucleotide binding region [chemical binding]; other site 561231004732 ATP-binding site [chemical binding]; other site 561231004733 Methyltransferase domain; Region: Methyltransf_26; pfam13659 561231004734 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 561231004735 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 561231004736 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 561231004737 H-NS histone family; Region: Histone_HNS; pfam00816 561231004738 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 561231004739 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 561231004740 Active Sites [active] 561231004741 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 561231004742 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 561231004743 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 561231004744 cofactor binding site; other site 561231004745 DNA binding site [nucleotide binding] 561231004746 substrate interaction site [chemical binding]; other site 561231004747 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 561231004748 DNA topoisomerase III; Provisional; Region: PRK07726 561231004749 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 561231004750 active site 561231004751 putative interdomain interaction site [polypeptide binding]; other site 561231004752 putative metal-binding site [ion binding]; other site 561231004753 putative nucleotide binding site [chemical binding]; other site 561231004754 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 561231004755 domain I; other site 561231004756 DNA binding groove [nucleotide binding] 561231004757 phosphate binding site [ion binding]; other site 561231004758 domain II; other site 561231004759 domain III; other site 561231004760 nucleotide binding site [chemical binding]; other site 561231004761 catalytic site [active] 561231004762 domain IV; other site 561231004763 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561231004764 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 561231004765 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 561231004766 ssDNA binding site [nucleotide binding]; other site 561231004767 dimer interface [polypeptide binding]; other site 561231004768 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561231004769 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 561231004770 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 561231004771 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 561231004772 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 561231004773 ParB-like nuclease domain; Region: ParBc; pfam02195 561231004774 YcfA-like protein; Region: YcfA; cl00752 561231004775 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 561231004776 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 561231004777 P-loop; other site 561231004778 Magnesium ion binding site [ion binding]; other site 561231004779 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 561231004780 Magnesium ion binding site [ion binding]; other site 561231004781 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 561231004782 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231004783 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231004784 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 561231004785 dimerization interface [polypeptide binding]; other site 561231004786 substrate binding pocket [chemical binding]; other site 561231004787 integrase; Provisional; Region: PRK09692 561231004788 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231004789 active site 561231004790 Int/Topo IB signature motif; other site 561231004791 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 561231004792 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 561231004793 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 561231004794 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 561231004795 ATP binding site [chemical binding]; other site 561231004796 putative Mg++ binding site [ion binding]; other site 561231004797 HsdM N-terminal domain; Region: HsdM_N; pfam12161 561231004798 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 561231004799 Methyltransferase domain; Region: Methyltransf_26; pfam13659 561231004800 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 561231004801 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 561231004802 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 561231004803 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 561231004804 Uncharacterized conserved protein [Function unknown]; Region: COG1479 561231004805 Protein of unknown function DUF262; Region: DUF262; pfam03235 561231004806 Protein of unknown function DUF262; Region: DUF262; pfam03235 561231004807 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 561231004808 Uncharacterized conserved protein [Function unknown]; Region: COG3586 561231004809 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 561231004810 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 561231004811 ATP binding site [chemical binding]; other site 561231004812 putative Mg++ binding site [ion binding]; other site 561231004813 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 561231004814 nucleotide binding region [chemical binding]; other site 561231004815 ATP-binding site [chemical binding]; other site 561231004816 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 561231004817 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 561231004818 Ubiquitin-like proteins; Region: UBQ; cl00155 561231004819 charged pocket; other site 561231004820 hydrophobic patch; other site 561231004821 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 561231004822 active site 561231004823 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 561231004824 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 561231004825 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 561231004826 G1 box; other site 561231004827 GTP/Mg2+ binding site [chemical binding]; other site 561231004828 G2 box; other site 561231004829 Switch I region; other site 561231004830 G3 box; other site 561231004831 Switch II region; other site 561231004832 G4 box; other site 561231004833 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 561231004834 G2 box; other site 561231004835 Switch I region; other site 561231004836 G3 box; other site 561231004837 Switch II region; other site 561231004838 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 561231004839 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 561231004840 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 561231004841 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561231004842 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561231004843 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 561231004844 non-specific DNA binding site [nucleotide binding]; other site 561231004845 salt bridge; other site 561231004846 sequence-specific DNA binding site [nucleotide binding]; other site 561231004847 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561231004848 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 561231004849 non-specific DNA binding site [nucleotide binding]; other site 561231004850 salt bridge; other site 561231004851 sequence-specific DNA binding site [nucleotide binding]; other site 561231004852 integrase; Provisional; Region: PRK09692 561231004853 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231004854 active site 561231004855 Int/Topo IB signature motif; other site 561231004856 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 561231004857 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 561231004858 DNA binding site [nucleotide binding] 561231004859 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 561231004860 active site 561231004861 catalytic residues [active] 561231004862 DNA binding site [nucleotide binding] 561231004863 Int/Topo IB signature motif; other site 561231004864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 561231004865 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 561231004866 Transposase; Region: HTH_Tnp_1; pfam01527 561231004867 putative transposase OrfB; Reviewed; Region: PHA02517 561231004868 HTH-like domain; Region: HTH_21; pfam13276 561231004869 Integrase core domain; Region: rve; pfam00665 561231004870 Integrase core domain; Region: rve_3; pfam13683 561231004871 META domain; Region: META; cl01245 561231004872 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 561231004873 His-Xaa-Ser system protein HsxD; Region: chp_LLNDYxLRE; TIGR03976 561231004874 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 561231004875 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 561231004876 FeS/SAM binding site; other site 561231004877 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 561231004878 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 561231004879 FeS/SAM binding site; other site 561231004880 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 561231004881 ATP-grasp ribosomal peptide maturase, SAV_5884 family; Region: GRASP_SAV_5884; TIGR04187 561231004882 ATP-grasp domain; Region: ATP-grasp_4; cl17255 561231004883 HNH endonuclease; Region: HNH_2; pfam13391 561231004884 FRG domain; Region: FRG; pfam08867 561231004885 integrase; Provisional; Region: PRK09692 561231004886 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231004887 active site 561231004888 Int/Topo IB signature motif; other site 561231004889 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 561231004890 Sel1-like repeats; Region: SEL1; smart00671 561231004891 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 561231004892 Sel1-like repeats; Region: SEL1; smart00671 561231004893 Sel1-like repeats; Region: SEL1; smart00671 561231004894 Sel1-like repeats; Region: SEL1; smart00671 561231004895 Sel1-like repeats; Region: SEL1; smart00671 561231004896 Sel1-like repeats; Region: SEL1; smart00671 561231004897 Sel1-like repeats; Region: SEL1; smart00671 561231004898 Helix-turn-helix domain; Region: HTH_36; pfam13730 561231004899 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 561231004900 PLD-like domain; Region: PLDc_2; pfam13091 561231004901 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 561231004902 homodimer interface [polypeptide binding]; other site 561231004903 putative active site [active] 561231004904 putative active site [active] 561231004905 catalytic site [active] 561231004906 catalytic site [active] 561231004907 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 561231004908 MobA/MobL family; Region: MobA_MobL; pfam03389 561231004909 Conjugal transfer protein TraD; Region: TraD; pfam06412 561231004910 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 561231004911 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 561231004912 Domain of unknown function (DUF1874); Region: DUF1874; cl07531 561231004913 PilS N terminal; Region: PilS; pfam08805 561231004914 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 561231004915 PAAR motif; Region: PAAR_motif; pfam05488 561231004916 S-type Pyocin; Region: Pyocin_S; pfam06958 561231004917 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 561231004918 active site 561231004919 integrase; Provisional; Region: PRK09692 561231004920 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231004921 active site 561231004922 Int/Topo IB signature motif; other site 561231004923 galactoside permease; Reviewed; Region: lacY; PRK09528 561231004924 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 561231004925 putative substrate translocation pore; other site 561231004926 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 561231004927 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 561231004928 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 561231004929 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 561231004930 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 561231004931 lac repressor; Reviewed; Region: lacI; PRK09526 561231004932 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231004933 DNA binding site [nucleotide binding] 561231004934 domain linker motif; other site 561231004935 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 561231004936 ligand binding site [chemical binding]; other site 561231004937 dimerization interface (open form) [polypeptide binding]; other site 561231004938 dimerization interface (closed form) [polypeptide binding]; other site 561231004939 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 561231004940 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231004941 Walker A/P-loop; other site 561231004942 ATP binding site [chemical binding]; other site 561231004943 Q-loop/lid; other site 561231004944 ABC transporter signature motif; other site 561231004945 Walker B; other site 561231004946 D-loop; other site 561231004947 H-loop/switch region; other site 561231004948 TOBE domain; Region: TOBE_2; pfam08402 561231004949 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561231004950 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 561231004951 dimer interface [polypeptide binding]; other site 561231004952 conserved gate region; other site 561231004953 putative PBP binding loops; other site 561231004954 ABC-ATPase subunit interface; other site 561231004955 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 561231004956 dimer interface [polypeptide binding]; other site 561231004957 conserved gate region; other site 561231004958 putative PBP binding loops; other site 561231004959 ABC-ATPase subunit interface; other site 561231004960 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561231004961 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561231004962 regulatory protein UhpC; Provisional; Region: PRK11663 561231004963 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 561231004964 putative substrate translocation pore; other site 561231004965 MASE1; Region: MASE1; pfam05231 561231004966 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 561231004967 Histidine kinase; Region: HisKA_3; pfam07730 561231004968 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 561231004969 ATP binding site [chemical binding]; other site 561231004970 Mg2+ binding site [ion binding]; other site 561231004971 G-X-G motif; other site 561231004972 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 561231004973 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 561231004974 active site 561231004975 phosphorylation site [posttranslational modification] 561231004976 intermolecular recognition site; other site 561231004977 dimerization interface [polypeptide binding]; other site 561231004978 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 561231004979 DNA binding residues [nucleotide binding] 561231004980 dimerization interface [polypeptide binding]; other site 561231004981 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 561231004982 lipoprotein, YaeC family; Region: TIGR00363 561231004983 Pectate lyase; Region: Pec_lyase_C; cl01593 561231004984 aspartate racemase; Region: asp_race; TIGR00035 561231004985 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 561231004986 cell density-dependent motility repressor; Provisional; Region: PRK10082 561231004987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231004988 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 561231004989 dimerization interface [polypeptide binding]; other site 561231004990 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561231004991 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 561231004992 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 561231004993 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 561231004994 [4Fe-4S] binding site [ion binding]; other site 561231004995 molybdopterin cofactor binding site; other site 561231004996 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 561231004997 molybdopterin cofactor binding site; other site 561231004998 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231004999 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231005000 dimer interface [polypeptide binding]; other site 561231005001 putative CheW interface [polypeptide binding]; other site 561231005002 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 561231005003 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 561231005004 Predicted membrane protein [Function unknown]; Region: COG4393 561231005005 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 561231005006 Uncharacterized conserved protein [Function unknown]; Region: COG3350 561231005007 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561231005008 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 561231005009 FtsX-like permease family; Region: FtsX; pfam02687 561231005010 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 561231005011 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561231005012 FtsX-like permease family; Region: FtsX; pfam02687 561231005013 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561231005014 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561231005015 Walker A/P-loop; other site 561231005016 ATP binding site [chemical binding]; other site 561231005017 Q-loop/lid; other site 561231005018 ABC transporter signature motif; other site 561231005019 Walker B; other site 561231005020 D-loop; other site 561231005021 H-loop/switch region; other site 561231005022 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 561231005023 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 561231005024 catalytic residues [active] 561231005025 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561231005026 EamA-like transporter family; Region: EamA; pfam00892 561231005027 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561231005028 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231005029 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231005030 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 561231005031 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 561231005032 substrate binding site [chemical binding]; other site 561231005033 dimerization interface [polypeptide binding]; other site 561231005034 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 561231005035 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561231005036 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 561231005037 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 561231005038 putative active site [active] 561231005039 metal binding site [ion binding]; metal-binding site 561231005040 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561231005041 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 561231005042 putative PBP binding loops; other site 561231005043 dimer interface [polypeptide binding]; other site 561231005044 ABC-ATPase subunit interface; other site 561231005045 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561231005046 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561231005047 Walker A/P-loop; other site 561231005048 ATP binding site [chemical binding]; other site 561231005049 Q-loop/lid; other site 561231005050 ABC transporter signature motif; other site 561231005051 Walker B; other site 561231005052 D-loop; other site 561231005053 H-loop/switch region; other site 561231005054 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561231005055 NMT1-like family; Region: NMT1_2; pfam13379 561231005056 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 561231005057 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 561231005058 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231005059 substrate binding pocket [chemical binding]; other site 561231005060 membrane-bound complex binding site; other site 561231005061 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561231005062 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 561231005063 dimer interface [polypeptide binding]; other site 561231005064 conserved gate region; other site 561231005065 putative PBP binding loops; other site 561231005066 ABC-ATPase subunit interface; other site 561231005067 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561231005068 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561231005069 Walker A/P-loop; other site 561231005070 ATP binding site [chemical binding]; other site 561231005071 Q-loop/lid; other site 561231005072 ABC transporter signature motif; other site 561231005073 Walker B; other site 561231005074 D-loop; other site 561231005075 H-loop/switch region; other site 561231005076 D-cysteine desulfhydrase; Validated; Region: PRK03910 561231005077 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 561231005078 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561231005079 catalytic residue [active] 561231005080 aspartate racemase; Region: asp_race; TIGR00035 561231005081 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 561231005082 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 561231005083 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 561231005084 PAAR motif; Region: PAAR_motif; pfam05488 561231005085 Integrase core domain; Region: rve_3; cl15866 561231005086 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 561231005087 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 561231005088 Secretin and TonB N terminus short domain; Region: STN; smart00965 561231005089 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 561231005090 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 561231005091 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 561231005092 FecR protein; Region: FecR; pfam04773 561231005093 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 561231005094 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561231005095 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 561231005096 DNA binding residues [nucleotide binding] 561231005097 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 561231005098 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 561231005099 tetrameric interface [polypeptide binding]; other site 561231005100 NAD binding site [chemical binding]; other site 561231005101 catalytic residues [active] 561231005102 substrate binding site [chemical binding]; other site 561231005103 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 561231005104 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 561231005105 inhibitor-cofactor binding pocket; inhibition site 561231005106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231005107 catalytic residue [active] 561231005108 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231005109 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561231005110 HAMP domain; Region: HAMP; pfam00672 561231005111 dimerization interface [polypeptide binding]; other site 561231005112 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231005113 dimer interface [polypeptide binding]; other site 561231005114 putative CheW interface [polypeptide binding]; other site 561231005115 Methyltransferase domain; Region: Methyltransf_23; pfam13489 561231005116 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 561231005117 S-adenosylmethionine binding site [chemical binding]; other site 561231005118 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231005119 AMP nucleosidase; Provisional; Region: PRK08292 561231005120 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 561231005121 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 561231005122 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561231005123 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 561231005124 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 561231005125 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 561231005126 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 561231005127 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561231005128 putative substrate translocation pore; other site 561231005129 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561231005130 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231005131 Walker A/P-loop; other site 561231005132 ATP binding site [chemical binding]; other site 561231005133 Q-loop/lid; other site 561231005134 ABC transporter signature motif; other site 561231005135 Walker B; other site 561231005136 D-loop; other site 561231005137 H-loop/switch region; other site 561231005138 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231005139 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561231005140 Walker A/P-loop; other site 561231005141 ATP binding site [chemical binding]; other site 561231005142 Q-loop/lid; other site 561231005143 ABC transporter signature motif; other site 561231005144 Walker B; other site 561231005145 D-loop; other site 561231005146 H-loop/switch region; other site 561231005147 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 561231005148 catalytic residues [active] 561231005149 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561231005150 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561231005151 Walker A/P-loop; other site 561231005152 ATP binding site [chemical binding]; other site 561231005153 Q-loop/lid; other site 561231005154 ABC transporter signature motif; other site 561231005155 Walker B; other site 561231005156 D-loop; other site 561231005157 H-loop/switch region; other site 561231005158 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561231005159 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 561231005160 dimer interface [polypeptide binding]; other site 561231005161 conserved gate region; other site 561231005162 putative PBP binding loops; other site 561231005163 ABC-ATPase subunit interface; other site 561231005164 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561231005165 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 561231005166 dimer interface [polypeptide binding]; other site 561231005167 conserved gate region; other site 561231005168 putative PBP binding loops; other site 561231005169 ABC-ATPase subunit interface; other site 561231005170 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561231005171 NMT1-like family; Region: NMT1_2; pfam13379 561231005172 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231005173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231005174 LysR substrate binding domain; Region: LysR_substrate; pfam03466 561231005175 dimerization interface [polypeptide binding]; other site 561231005176 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 561231005177 transcriptional regulator TraR; Provisional; Region: PRK13870 561231005178 Autoinducer binding domain; Region: Autoind_bind; pfam03472 561231005179 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 561231005180 DNA binding residues [nucleotide binding] 561231005181 dimerization interface [polypeptide binding]; other site 561231005182 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 561231005183 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 561231005184 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 561231005185 active site 561231005186 phosphorylation site [posttranslational modification] 561231005187 intermolecular recognition site; other site 561231005188 dimerization interface [polypeptide binding]; other site 561231005189 outer membrane receptor FepA; Provisional; Region: PRK13528 561231005190 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 561231005191 N-terminal plug; other site 561231005192 ligand-binding site [chemical binding]; other site 561231005193 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561231005194 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231005195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 561231005196 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231005197 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 561231005198 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 561231005199 putative substrate translocation pore; other site 561231005200 putative S-transferase; Provisional; Region: PRK11752 561231005201 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 561231005202 C-terminal domain interface [polypeptide binding]; other site 561231005203 GSH binding site (G-site) [chemical binding]; other site 561231005204 dimer interface [polypeptide binding]; other site 561231005205 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 561231005206 dimer interface [polypeptide binding]; other site 561231005207 N-terminal domain interface [polypeptide binding]; other site 561231005208 active site 561231005209 hypothetical protein; Provisional; Region: PRK06815 561231005210 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 561231005211 tetramer interface [polypeptide binding]; other site 561231005212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231005213 catalytic residue [active] 561231005214 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 561231005215 dimerization interface [polypeptide binding]; other site 561231005216 putative DNA binding site [nucleotide binding]; other site 561231005217 putative Zn2+ binding site [ion binding]; other site 561231005218 KTSC domain; Region: KTSC; pfam13619 561231005219 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 561231005220 heme-binding site [chemical binding]; other site 561231005221 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231005222 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231005223 metal binding site [ion binding]; metal-binding site 561231005224 active site 561231005225 I-site; other site 561231005226 hypothetical protein; Provisional; Region: PRK10708 561231005227 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561231005228 ligand binding site [chemical binding]; other site 561231005229 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 561231005230 dimerization interface [polypeptide binding]; other site 561231005231 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231005232 dimer interface [polypeptide binding]; other site 561231005233 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561231005234 putative CheW interface [polypeptide binding]; other site 561231005235 EamA-like transporter family; Region: EamA; pfam00892 561231005236 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561231005237 EamA-like transporter family; Region: EamA; pfam00892 561231005238 transcriptional activator FlhD; Provisional; Region: PRK02909 561231005239 transcriptional activator FlhC; Provisional; Region: PRK12722 561231005240 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 561231005241 flagellar motor protein MotA; Validated; Region: PRK09110 561231005242 flagellar motor protein MotB; Validated; Region: motB; PRK09041 561231005243 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 561231005244 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 561231005245 ligand binding site [chemical binding]; other site 561231005246 chemotaxis protein CheA; Provisional; Region: PRK10547 561231005247 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 561231005248 putative binding surface; other site 561231005249 active site 561231005250 CheY binding; Region: CheY-binding; pfam09078 561231005251 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 561231005252 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 561231005253 ATP binding site [chemical binding]; other site 561231005254 Mg2+ binding site [ion binding]; other site 561231005255 G-X-G motif; other site 561231005256 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 561231005257 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 561231005258 putative CheA interaction surface; other site 561231005259 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 561231005260 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561231005261 dimer interface [polypeptide binding]; other site 561231005262 ligand binding site [chemical binding]; other site 561231005263 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 561231005264 dimerization interface [polypeptide binding]; other site 561231005265 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231005266 dimer interface [polypeptide binding]; other site 561231005267 putative CheW interface [polypeptide binding]; other site 561231005268 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 561231005269 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 561231005270 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 561231005271 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 561231005272 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 561231005273 active site 561231005274 phosphorylation site [posttranslational modification] 561231005275 intermolecular recognition site; other site 561231005276 dimerization interface [polypeptide binding]; other site 561231005277 CheB methylesterase; Region: CheB_methylest; pfam01339 561231005278 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 561231005279 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 561231005280 active site 561231005281 phosphorylation site [posttranslational modification] 561231005282 intermolecular recognition site; other site 561231005283 dimerization interface [polypeptide binding]; other site 561231005284 chemotaxis regulator CheZ; Provisional; Region: PRK11166 561231005285 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12468 561231005286 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 561231005287 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 561231005288 FHIPEP family; Region: FHIPEP; pfam00771 561231005289 Flagellar protein FlhE; Region: FlhE; pfam06366 561231005290 Flagellar biosynthesis/type III secretory pathway chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3418 561231005291 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 561231005292 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 561231005293 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 561231005294 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 561231005295 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 561231005296 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 561231005297 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 561231005298 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561231005299 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561231005300 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 561231005301 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 561231005302 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 561231005303 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 561231005304 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561231005305 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 561231005306 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561231005307 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 561231005308 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561231005309 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561231005310 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 561231005311 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561231005312 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561231005313 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 561231005314 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 561231005315 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 561231005316 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 561231005317 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 561231005318 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 561231005319 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 561231005320 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 561231005321 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561231005322 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 561231005323 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 561231005324 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 561231005325 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 561231005326 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 561231005327 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 561231005328 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 561231005329 flagellar motor switch protein; Validated; Region: fliN; PRK05698 561231005330 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 561231005331 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 561231005332 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 561231005333 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 561231005334 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 561231005335 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 561231005336 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 561231005337 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 561231005338 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 561231005339 Walker A motif/ATP binding site; other site 561231005340 Walker B motif; other site 561231005341 flagellar assembly protein H; Validated; Region: fliH; PRK05687 561231005342 Flagellar assembly protein FliH; Region: FliH; pfam02108 561231005343 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 561231005344 FliG C-terminal domain; Region: FliG_C; pfam01706 561231005345 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 561231005346 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 561231005347 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 561231005348 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 561231005349 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 561231005350 flagellar protein FliS; Validated; Region: fliS; PRK05685 561231005351 flagellar capping protein; Reviewed; Region: fliD; PRK08032 561231005352 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 561231005353 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 561231005354 flagellin; Validated; Region: PRK06819 561231005355 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 561231005356 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 561231005357 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 561231005358 Methyltransferase domain; Region: Methyltransf_31; pfam13847 561231005359 S-adenosylmethionine binding site [chemical binding]; other site 561231005360 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 561231005361 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 561231005362 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 561231005363 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561231005364 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 561231005365 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 561231005366 DNA binding residues [nucleotide binding] 561231005367 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 561231005368 hypothetical protein; Provisional; Region: PRK10536 561231005369 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 561231005370 integrase; Provisional; Region: PRK09692 561231005371 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231005372 active site 561231005373 Int/Topo IB signature motif; other site 561231005374 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 561231005375 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 561231005376 Sulfatase; Region: Sulfatase; cl17466 561231005377 hypothetical protein; Provisional; Region: PRK13689 561231005378 Nucleoid-associated protein [General function prediction only]; Region: COG3081 561231005379 nucleoid-associated protein NdpA; Validated; Region: PRK00378 561231005380 Predicted membrane protein [Function unknown]; Region: COG3503 561231005381 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 561231005382 5S rRNA interface [nucleotide binding]; other site 561231005383 CTC domain interface [polypeptide binding]; other site 561231005384 L16 interface [polypeptide binding]; other site 561231005385 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 561231005386 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 561231005387 ATP binding site [chemical binding]; other site 561231005388 putative Mg++ binding site [ion binding]; other site 561231005389 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 561231005390 nucleotide binding region [chemical binding]; other site 561231005391 ATP-binding site [chemical binding]; other site 561231005392 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 561231005393 probable metal-binding protein; Region: matur_matur; TIGR03853 561231005394 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 561231005395 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 561231005396 RNA binding surface [nucleotide binding]; other site 561231005397 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 561231005398 active site 561231005399 uracil binding [chemical binding]; other site 561231005400 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 561231005401 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 561231005402 putative substrate translocation pore; other site 561231005403 hypothetical protein; Provisional; Region: PRK11835 561231005404 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 561231005405 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231005406 Walker A/P-loop; other site 561231005407 ATP binding site [chemical binding]; other site 561231005408 Q-loop/lid; other site 561231005409 ABC transporter signature motif; other site 561231005410 Walker B; other site 561231005411 D-loop; other site 561231005412 H-loop/switch region; other site 561231005413 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231005414 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231005415 Walker A/P-loop; other site 561231005416 ATP binding site [chemical binding]; other site 561231005417 Q-loop/lid; other site 561231005418 ABC transporter signature motif; other site 561231005419 Walker B; other site 561231005420 D-loop; other site 561231005421 H-loop/switch region; other site 561231005422 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 561231005423 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561231005424 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 561231005425 dimer interface [polypeptide binding]; other site 561231005426 conserved gate region; other site 561231005427 putative PBP binding loops; other site 561231005428 ABC-ATPase subunit interface; other site 561231005429 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 561231005430 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 561231005431 dimer interface [polypeptide binding]; other site 561231005432 conserved gate region; other site 561231005433 putative PBP binding loops; other site 561231005434 ABC-ATPase subunit interface; other site 561231005435 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 561231005436 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 561231005437 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 561231005438 NlpC/P60 family; Region: NLPC_P60; pfam00877 561231005439 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; cd01610 561231005440 active site 561231005441 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 561231005442 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 561231005443 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 561231005444 elongation factor P; Provisional; Region: PRK04542 561231005445 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 561231005446 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 561231005447 RNA binding site [nucleotide binding]; other site 561231005448 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 561231005449 RNA binding site [nucleotide binding]; other site 561231005450 sugar efflux transporter B; Provisional; Region: PRK15011 561231005451 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 561231005452 putative substrate translocation pore; other site 561231005453 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 561231005454 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561231005455 active site 561231005456 phosphorylation site [posttranslational modification] 561231005457 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 561231005458 dimerization domain swap beta strand [polypeptide binding]; other site 561231005459 regulatory protein interface [polypeptide binding]; other site 561231005460 active site 561231005461 regulatory phosphorylation site [posttranslational modification]; other site 561231005462 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 561231005463 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 561231005464 putative substrate binding site [chemical binding]; other site 561231005465 putative ATP binding site [chemical binding]; other site 561231005466 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 561231005467 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 561231005468 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 561231005469 active site 561231005470 P-loop; other site 561231005471 phosphorylation site [posttranslational modification] 561231005472 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 561231005473 endonuclease IV; Provisional; Region: PRK01060 561231005474 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; cd00019 561231005475 AP (apurinic/apyrimidinic) site pocket; other site 561231005476 DNA interaction; other site 561231005477 Metal-binding active site; metal-binding site 561231005478 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 561231005479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231005480 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 561231005481 putative dimerization interface [polypeptide binding]; other site 561231005482 lysine transporter; Provisional; Region: PRK10836 561231005483 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 561231005484 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 561231005485 N-terminal plug; other site 561231005486 ligand-binding site [chemical binding]; other site 561231005487 glycerate dehydrogenase; Provisional; Region: PRK06932 561231005488 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 561231005489 putative ligand binding site [chemical binding]; other site 561231005490 putative NAD binding site [chemical binding]; other site 561231005491 catalytic site [active] 561231005492 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231005493 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561231005494 TM-ABC transporter signature motif; other site 561231005495 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561231005496 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561231005497 Walker A/P-loop; other site 561231005498 ATP binding site [chemical binding]; other site 561231005499 Q-loop/lid; other site 561231005500 ABC transporter signature motif; other site 561231005501 Walker B; other site 561231005502 D-loop; other site 561231005503 H-loop/switch region; other site 561231005504 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561231005505 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 561231005506 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 561231005507 putative active site [active] 561231005508 metal binding site [ion binding]; metal-binding site 561231005509 KTSC domain; Region: KTSC; pfam13619 561231005510 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561231005511 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 561231005512 putative C-terminal domain interface [polypeptide binding]; other site 561231005513 putative GSH binding site (G-site) [chemical binding]; other site 561231005514 putative dimer interface [polypeptide binding]; other site 561231005515 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 561231005516 putative N-terminal domain interface [polypeptide binding]; other site 561231005517 putative dimer interface [polypeptide binding]; other site 561231005518 putative substrate binding pocket (H-site) [chemical binding]; other site 561231005519 S-formylglutathione hydrolase; Region: PLN02442 561231005520 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 561231005521 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 561231005522 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 561231005523 substrate binding site [chemical binding]; other site 561231005524 catalytic Zn binding site [ion binding]; other site 561231005525 NAD binding site [chemical binding]; other site 561231005526 structural Zn binding site [ion binding]; other site 561231005527 dimer interface [polypeptide binding]; other site 561231005528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231005529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231005530 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 561231005531 putative dimerization interface [polypeptide binding]; other site 561231005532 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 561231005533 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561231005534 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231005535 dimer interface [polypeptide binding]; other site 561231005536 putative CheW interface [polypeptide binding]; other site 561231005537 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 561231005538 active site 561231005539 Predicted membrane protein [Function unknown]; Region: COG2311 561231005540 hypothetical protein; Provisional; Region: PRK10835 561231005541 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 561231005542 putative active site [active] 561231005543 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 561231005544 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 561231005545 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 561231005546 FeS/SAM binding site; other site 561231005547 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 561231005548 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 561231005549 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561231005550 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 561231005551 putative C-terminal domain interface [polypeptide binding]; other site 561231005552 putative GSH binding site (G-site) [chemical binding]; other site 561231005553 putative dimer interface [polypeptide binding]; other site 561231005554 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 561231005555 putative N-terminal domain interface [polypeptide binding]; other site 561231005556 putative dimer interface [polypeptide binding]; other site 561231005557 putative substrate binding pocket (H-site) [chemical binding]; other site 561231005558 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 561231005559 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 561231005560 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 561231005561 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 561231005562 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 561231005563 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 561231005564 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 561231005565 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561231005566 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 561231005567 intersubunit interface [polypeptide binding]; other site 561231005568 active site 561231005569 catalytic residue [active] 561231005570 putative transporter; Provisional; Region: PRK04972 561231005571 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 561231005572 TrkA-C domain; Region: TrkA_C; pfam02080 561231005573 TrkA-C domain; Region: TrkA_C; pfam02080 561231005574 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 561231005575 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 561231005576 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 561231005577 GSH binding site [chemical binding]; other site 561231005578 catalytic residues [active] 561231005579 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 561231005580 dimer interface [polypeptide binding]; other site 561231005581 FMN binding site [chemical binding]; other site 561231005582 NADPH bind site [chemical binding]; other site 561231005583 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 561231005584 RimK-like ATP-grasp domain; Region: RimK; pfam08443 561231005585 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 561231005586 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 561231005587 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561231005588 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 561231005589 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231005590 Walker A/P-loop; other site 561231005591 ATP binding site [chemical binding]; other site 561231005592 Q-loop/lid; other site 561231005593 ABC transporter signature motif; other site 561231005594 Walker B; other site 561231005595 D-loop; other site 561231005596 H-loop/switch region; other site 561231005597 TOBE domain; Region: TOBE_2; pfam08402 561231005598 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 561231005599 dimer interface [polypeptide binding]; other site 561231005600 conserved gate region; other site 561231005601 putative PBP binding loops; other site 561231005602 ABC-ATPase subunit interface; other site 561231005603 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561231005604 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 561231005605 dimer interface [polypeptide binding]; other site 561231005606 conserved gate region; other site 561231005607 putative PBP binding loops; other site 561231005608 ABC-ATPase subunit interface; other site 561231005609 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 561231005610 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 561231005611 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 561231005612 S-adenosylmethionine binding site [chemical binding]; other site 561231005613 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 561231005614 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231005615 substrate binding pocket [chemical binding]; other site 561231005616 membrane-bound complex binding site; other site 561231005617 hinge residues; other site 561231005618 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 561231005619 dimer interface [polypeptide binding]; other site 561231005620 conserved gate region; other site 561231005621 putative PBP binding loops; other site 561231005622 ABC-ATPase subunit interface; other site 561231005623 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231005624 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 561231005625 dimer interface [polypeptide binding]; other site 561231005626 conserved gate region; other site 561231005627 putative PBP binding loops; other site 561231005628 ABC-ATPase subunit interface; other site 561231005629 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 561231005630 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231005631 substrate binding pocket [chemical binding]; other site 561231005632 membrane-bound complex binding site; other site 561231005633 hinge residues; other site 561231005634 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 561231005635 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231005636 Walker A/P-loop; other site 561231005637 ATP binding site [chemical binding]; other site 561231005638 Q-loop/lid; other site 561231005639 ABC transporter signature motif; other site 561231005640 Walker B; other site 561231005641 D-loop; other site 561231005642 H-loop/switch region; other site 561231005643 hypothetical protein; Provisional; Region: PRK02877 561231005644 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 561231005645 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 561231005646 amidase catalytic site [active] 561231005647 Zn binding residues [ion binding]; other site 561231005648 substrate binding site [chemical binding]; other site 561231005649 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 561231005650 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 561231005651 putative NAD(P) binding site [chemical binding]; other site 561231005652 putative active site [active] 561231005653 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 561231005654 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 561231005655 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 561231005656 FAD binding pocket [chemical binding]; other site 561231005657 FAD binding motif [chemical binding]; other site 561231005658 phosphate binding motif [ion binding]; other site 561231005659 beta-alpha-beta structure motif; other site 561231005660 NAD binding pocket [chemical binding]; other site 561231005661 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 561231005662 catalytic loop [active] 561231005663 iron binding site [ion binding]; other site 561231005664 hybrid cluster protein; Provisional; Region: PRK05290 561231005665 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 561231005666 ACS interaction site; other site 561231005667 CODH interaction site; other site 561231005668 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 561231005669 hybrid metal cluster; other site 561231005670 Predicted membrane protein [Function unknown]; Region: COG2431 561231005671 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 561231005672 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 561231005673 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 561231005674 putative active site [active] 561231005675 putative metal-binding site [ion binding]; other site 561231005676 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 561231005677 DNA-binding site [nucleotide binding]; DNA binding site 561231005678 RNA-binding motif; other site 561231005679 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 561231005680 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 561231005681 Clp amino terminal domain; Region: Clp_N; pfam02861 561231005682 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 561231005683 Walker A motif; other site 561231005684 ATP binding site [chemical binding]; other site 561231005685 Walker B motif; other site 561231005686 arginine finger; other site 561231005687 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 561231005688 Walker A motif; other site 561231005689 ATP binding site [chemical binding]; other site 561231005690 Walker B motif; other site 561231005691 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 561231005692 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561231005693 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_11; cd07261 561231005694 putative dimer interface [polypeptide binding]; other site 561231005695 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 561231005696 rRNA binding site [nucleotide binding]; other site 561231005697 predicted 30S ribosome binding site; other site 561231005698 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 561231005699 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 561231005700 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561231005701 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 561231005702 Walker A/P-loop; other site 561231005703 ATP binding site [chemical binding]; other site 561231005704 Q-loop/lid; other site 561231005705 ABC transporter signature motif; other site 561231005706 Walker B; other site 561231005707 D-loop; other site 561231005708 H-loop/switch region; other site 561231005709 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 561231005710 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561231005711 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231005712 Walker A/P-loop; other site 561231005713 ATP binding site [chemical binding]; other site 561231005714 Q-loop/lid; other site 561231005715 ABC transporter signature motif; other site 561231005716 Walker B; other site 561231005717 D-loop; other site 561231005718 H-loop/switch region; other site 561231005719 thioredoxin reductase; Provisional; Region: PRK10262 561231005720 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561231005721 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231005722 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 561231005723 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 561231005724 putative DNA binding site [nucleotide binding]; other site 561231005725 putative Zn2+ binding site [ion binding]; other site 561231005726 AsnC family; Region: AsnC_trans_reg; pfam01037 561231005727 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 561231005728 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 561231005729 DNA translocase FtsK; Provisional; Region: PRK10263 561231005730 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 561231005731 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 561231005732 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 561231005733 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 561231005734 recombination factor protein RarA; Reviewed; Region: PRK13342 561231005735 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 561231005736 Walker A motif; other site 561231005737 ATP binding site [chemical binding]; other site 561231005738 Walker B motif; other site 561231005739 arginine finger; other site 561231005740 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 561231005741 seryl-tRNA synthetase; Provisional; Region: PRK05431 561231005742 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 561231005743 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 561231005744 dimer interface [polypeptide binding]; other site 561231005745 active site 561231005746 motif 1; other site 561231005747 motif 2; other site 561231005748 motif 3; other site 561231005749 putative MFS family transporter protein; Provisional; Region: PRK03633 561231005750 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 561231005751 putative substrate translocation pore; other site 561231005752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231005753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231005754 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 561231005755 dimerization interface [polypeptide binding]; other site 561231005756 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 561231005757 Na binding site [ion binding]; other site 561231005758 Protein of unknown function (DUF917); Region: DUF917; pfam06032 561231005759 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 561231005760 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 561231005761 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 561231005762 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 561231005763 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 561231005764 FeS/SAM binding site; other site 561231005765 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 561231005766 Pyruvate formate lyase 1; Region: PFL1; cd01678 561231005767 coenzyme A binding site [chemical binding]; other site 561231005768 active site 561231005769 catalytic residues [active] 561231005770 glycine loop; other site 561231005771 formate transporter; Provisional; Region: PRK10805 561231005772 uncharacterized domain; Region: TIGR00702 561231005773 YcaO-like family; Region: YcaO; pfam02624 561231005774 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 561231005775 homodimer interface [polypeptide binding]; other site 561231005776 substrate-cofactor binding pocket; other site 561231005777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231005778 catalytic residue [active] 561231005779 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 561231005780 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 561231005781 hinge; other site 561231005782 active site 561231005783 cytidylate kinase; Provisional; Region: cmk; PRK00023 561231005784 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 561231005785 CMP-binding site; other site 561231005786 The sites determining sugar specificity; other site 561231005787 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 561231005788 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 561231005789 RNA binding site [nucleotide binding]; other site 561231005790 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 561231005791 RNA binding site [nucleotide binding]; other site 561231005792 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 561231005793 RNA binding site [nucleotide binding]; other site 561231005794 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 561231005795 RNA binding site [nucleotide binding]; other site 561231005796 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 561231005797 RNA binding site [nucleotide binding]; other site 561231005798 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 561231005799 RNA binding site [nucleotide binding]; other site 561231005800 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 561231005801 IHF dimer interface [polypeptide binding]; other site 561231005802 IHF - DNA interface [nucleotide binding]; other site 561231005803 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 561231005804 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 561231005805 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 561231005806 metal binding site [ion binding]; metal-binding site 561231005807 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 561231005808 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 561231005809 substrate binding site [chemical binding]; other site 561231005810 glutamase interaction surface [polypeptide binding]; other site 561231005811 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 561231005812 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 561231005813 catalytic residues [active] 561231005814 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 561231005815 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 561231005816 putative active site [active] 561231005817 oxyanion strand; other site 561231005818 catalytic triad [active] 561231005819 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 561231005820 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 561231005821 active site 561231005822 motif I; other site 561231005823 motif II; other site 561231005824 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 561231005825 putative active site pocket [active] 561231005826 4-fold oligomerization interface [polypeptide binding]; other site 561231005827 metal binding residues [ion binding]; metal-binding site 561231005828 3-fold/trimer interface [polypeptide binding]; other site 561231005829 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 561231005830 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 561231005831 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231005832 homodimer interface [polypeptide binding]; other site 561231005833 catalytic residue [active] 561231005834 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 561231005835 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 561231005836 NAD binding site [chemical binding]; other site 561231005837 dimerization interface [polypeptide binding]; other site 561231005838 product binding site; other site 561231005839 substrate binding site [chemical binding]; other site 561231005840 zinc binding site [ion binding]; other site 561231005841 catalytic residues [active] 561231005842 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 561231005843 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 561231005844 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 561231005845 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 561231005846 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 561231005847 putative NAD(P) binding site [chemical binding]; other site 561231005848 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561231005849 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561231005850 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561231005851 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 561231005852 dimerization interface [polypeptide binding]; other site 561231005853 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231005854 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231005855 dimer interface [polypeptide binding]; other site 561231005856 putative CheW interface [polypeptide binding]; other site 561231005857 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 561231005858 dimerization interface [polypeptide binding]; other site 561231005859 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231005860 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231005861 dimer interface [polypeptide binding]; other site 561231005862 putative CheW interface [polypeptide binding]; other site 561231005863 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 561231005864 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 561231005865 active site 561231005866 phosphorylation site [posttranslational modification] 561231005867 intermolecular recognition site; other site 561231005868 dimerization interface [polypeptide binding]; other site 561231005869 Transcriptional regulator; Region: CitT; pfam12431 561231005870 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 561231005871 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 561231005872 PAS domain; Region: PAS; smart00091 561231005873 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 561231005874 ATP binding site [chemical binding]; other site 561231005875 Mg2+ binding site [ion binding]; other site 561231005876 G-X-G motif; other site 561231005877 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 561231005878 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 561231005879 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 561231005880 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 561231005881 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 561231005882 putative active site [active] 561231005883 (T/H)XGH motif; other site 561231005884 citrate lyase subunit gamma; Provisional; Region: PRK13253 561231005885 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 561231005886 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 561231005887 holo-ACP synthase CitX; Region: citrate_citX; TIGR03124 561231005888 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 561231005889 Flagellar regulator YcgR; Region: YcgR; pfam07317 561231005890 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 561231005891 PilZ domain; Region: PilZ; pfam07238 561231005892 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 561231005893 exonuclease I; Provisional; Region: sbcB; PRK11779 561231005894 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 561231005895 active site 561231005896 catalytic site [active] 561231005897 substrate binding site [chemical binding]; other site 561231005898 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 561231005899 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 561231005900 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 561231005901 putative ligand binding residues [chemical binding]; other site 561231005902 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561231005903 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 561231005904 ABC-ATPase subunit interface; other site 561231005905 dimer interface [polypeptide binding]; other site 561231005906 putative PBP binding regions; other site 561231005907 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 561231005908 ABC-ATPase subunit interface; other site 561231005909 dimer interface [polypeptide binding]; other site 561231005910 putative PBP binding regions; other site 561231005911 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 561231005912 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561231005913 Walker A/P-loop; other site 561231005914 ATP binding site [chemical binding]; other site 561231005915 Q-loop/lid; other site 561231005916 ABC transporter signature motif; other site 561231005917 Walker B; other site 561231005918 D-loop; other site 561231005919 H-loop/switch region; other site 561231005920 hypothetical protein; Provisional; Region: PRK05423 561231005921 ComEC family competence protein; Provisional; Region: PRK11539 561231005922 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 561231005923 Competence protein; Region: Competence; pfam03772 561231005924 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 561231005925 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 561231005926 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561231005927 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 561231005928 Walker A/P-loop; other site 561231005929 ATP binding site [chemical binding]; other site 561231005930 Q-loop/lid; other site 561231005931 ABC transporter signature motif; other site 561231005932 Walker B; other site 561231005933 D-loop; other site 561231005934 H-loop/switch region; other site 561231005935 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 561231005936 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 561231005937 Trm112p-like protein; Region: Trm112p; cl01066 561231005938 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 561231005939 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 561231005940 Ligand binding site; other site 561231005941 oligomer interface; other site 561231005942 hypothetical protein; Provisional; Region: PRK10593 561231005943 Uncharacterized conserved protein [Function unknown]; Region: COG1434 561231005944 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 561231005945 putative active site [active] 561231005946 Methyltransferase domain; Region: Methyltransf_31; pfam13847 561231005947 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 561231005948 S-adenosylmethionine binding site [chemical binding]; other site 561231005949 condesin subunit F; Provisional; Region: PRK05260 561231005950 condesin subunit E; Provisional; Region: PRK05256 561231005951 cell division protein MukB; Provisional; Region: mukB; PRK04863 561231005952 P-loop containing region of AAA domain; Region: AAA_29; cl17516 561231005953 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 561231005954 murein L,D-transpeptidase; Provisional; Region: PRK10594 561231005955 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 561231005956 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 561231005957 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cl03181 561231005958 active site 561231005959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 561231005960 Peptidase M15; Region: Peptidase_M15_3; cl01194 561231005961 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 561231005962 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 561231005963 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 561231005964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231005965 homodimer interface [polypeptide binding]; other site 561231005966 catalytic residue [active] 561231005967 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 561231005968 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 561231005969 trimer interface [polypeptide binding]; other site 561231005970 eyelet of channel; other site 561231005971 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 561231005972 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 561231005973 putative dimer interface [polypeptide binding]; other site 561231005974 putative anticodon binding site; other site 561231005975 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 561231005976 homodimer interface [polypeptide binding]; other site 561231005977 motif 1; other site 561231005978 motif 2; other site 561231005979 active site 561231005980 motif 3; other site 561231005981 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 561231005982 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 561231005983 active site 561231005984 aminopeptidase N; Provisional; Region: pepN; PRK14015 561231005985 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 561231005986 active site 561231005987 Zn binding site [ion binding]; other site 561231005988 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 561231005989 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 561231005990 quinone interaction residues [chemical binding]; other site 561231005991 active site 561231005992 catalytic residues [active] 561231005993 FMN binding site [chemical binding]; other site 561231005994 substrate binding site [chemical binding]; other site 561231005995 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 561231005996 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 561231005997 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 561231005998 MOSC domain; Region: MOSC; pfam03473 561231005999 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 561231006000 catalytic loop [active] 561231006001 iron binding site [ion binding]; other site 561231006002 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 561231006003 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 561231006004 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 561231006005 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 561231006006 S-adenosylmethionine binding site [chemical binding]; other site 561231006007 ABC transporter ATPase component; Reviewed; Region: PRK11147 561231006008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231006009 Walker A/P-loop; other site 561231006010 ATP binding site [chemical binding]; other site 561231006011 Q-loop/lid; other site 561231006012 ABC transporter signature motif; other site 561231006013 Walker B; other site 561231006014 D-loop; other site 561231006015 H-loop/switch region; other site 561231006016 ABC transporter; Region: ABC_tran_2; pfam12848 561231006017 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561231006018 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 561231006019 Paraquat-inducible protein A; Region: PqiA; pfam04403 561231006020 Paraquat-inducible protein A; Region: PqiA; pfam04403 561231006021 paraquat-inducible protein B; Provisional; Region: PRK10807 561231006022 mce related protein; Region: MCE; pfam02470 561231006023 mce related protein; Region: MCE; pfam02470 561231006024 mce related protein; Region: MCE; pfam02470 561231006025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 561231006026 Protein of unknown function (DUF330); Region: DUF330; pfam03886 561231006027 ribosome modulation factor; Provisional; Region: PRK14563 561231006028 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 561231006029 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231006030 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231006031 dimer interface [polypeptide binding]; other site 561231006032 putative CheW interface [polypeptide binding]; other site 561231006033 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 561231006034 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 561231006035 putative hydrolase; Validated; Region: PRK09248 561231006036 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 561231006037 active site 561231006038 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 561231006039 lipoprotein; Provisional; Region: PRK10598 561231006040 glutaredoxin 2; Provisional; Region: PRK10387 561231006041 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 561231006042 C-terminal domain interface [polypeptide binding]; other site 561231006043 GSH binding site (G-site) [chemical binding]; other site 561231006044 catalytic residues [active] 561231006045 putative dimer interface [polypeptide binding]; other site 561231006046 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 561231006047 N-terminal domain interface [polypeptide binding]; other site 561231006048 multidrug resistance protein MdtH; Provisional; Region: PRK11646 561231006049 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 561231006050 putative substrate translocation pore; other site 561231006051 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 561231006052 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 561231006053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 561231006054 hypothetical protein; Provisional; Region: PRK11239 561231006055 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561231006056 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561231006057 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 561231006058 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 561231006059 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 561231006060 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 561231006061 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 561231006062 active site 561231006063 HIGH motif; other site 561231006064 KMSK motif region; other site 561231006065 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 561231006066 tRNA binding surface [nucleotide binding]; other site 561231006067 anticodon binding site; other site 561231006068 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_4; cd07268 561231006069 putative metal binding site [ion binding]; other site 561231006070 copper homeostasis protein CutC; Provisional; Region: PRK11572 561231006071 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 561231006072 putative active site [active] 561231006073 Methyltransferase domain; Region: Methyltransf_23; pfam13489 561231006074 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 561231006075 S-adenosylmethionine binding site [chemical binding]; other site 561231006076 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 561231006077 S-adenosylmethionine binding site [chemical binding]; other site 561231006078 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 561231006079 hypothetical protein; Provisional; Region: PRK10302 561231006080 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 561231006081 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 561231006082 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 561231006083 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 561231006084 dimer interface [polypeptide binding]; other site 561231006085 anticodon binding site; other site 561231006086 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 561231006087 homodimer interface [polypeptide binding]; other site 561231006088 motif 1; other site 561231006089 active site 561231006090 motif 2; other site 561231006091 GAD domain; Region: GAD; pfam02938 561231006092 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 561231006093 active site 561231006094 motif 3; other site 561231006095 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 561231006096 nudix motif; other site 561231006097 hypothetical protein; Validated; Region: PRK00110 561231006098 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 561231006099 active site 561231006100 putative DNA-binding cleft [nucleotide binding]; other site 561231006101 dimer interface [polypeptide binding]; other site 561231006102 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 561231006103 RuvA N terminal domain; Region: RuvA_N; pfam01330 561231006104 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 561231006105 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 561231006106 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 561231006107 Walker A motif; other site 561231006108 ATP binding site [chemical binding]; other site 561231006109 Walker B motif; other site 561231006110 arginine finger; other site 561231006111 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 561231006112 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 561231006113 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 561231006114 methionine cluster; other site 561231006115 active site 561231006116 phosphorylation site [posttranslational modification] 561231006117 metal binding site [ion binding]; metal-binding site 561231006118 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 561231006119 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 561231006120 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561231006121 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231006122 DNA binding site [nucleotide binding] 561231006123 domain linker motif; other site 561231006124 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 561231006125 ligand binding site [chemical binding]; other site 561231006126 dimerization interface [polypeptide binding]; other site 561231006127 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561231006128 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 561231006129 ABC-ATPase subunit interface; other site 561231006130 dimer interface [polypeptide binding]; other site 561231006131 putative PBP binding regions; other site 561231006132 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 561231006133 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 561231006134 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 561231006135 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 561231006136 metal binding site [ion binding]; metal-binding site 561231006137 putative peptidase; Provisional; Region: PRK11649 561231006138 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 561231006139 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561231006140 Peptidase family M23; Region: Peptidase_M23; pfam01551 561231006141 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 561231006142 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 561231006143 putative acyl-acceptor binding pocket; other site 561231006144 pyruvate kinase; Provisional; Region: PRK05826 561231006145 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 561231006146 domain interfaces; other site 561231006147 active site 561231006148 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 561231006149 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 561231006150 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 561231006151 putative active site [active] 561231006152 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 561231006153 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 561231006154 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 561231006155 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 561231006156 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 561231006157 active site 561231006158 intersubunit interface [polypeptide binding]; other site 561231006159 catalytic residue [active] 561231006160 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 561231006161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561231006162 ATP-grasp domain; Region: ATP-grasp; pfam02222 561231006163 protease 2; Provisional; Region: PRK10115 561231006164 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561231006165 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 561231006166 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 561231006167 Ferritin-like domain; Region: Ferritin; pfam00210 561231006168 ferroxidase diiron center [ion binding]; other site 561231006169 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 561231006170 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 561231006171 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 561231006172 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 561231006173 DNA-binding site [nucleotide binding]; DNA binding site 561231006174 RNA-binding motif; other site 561231006175 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 561231006176 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231006177 Coenzyme A binding pocket [chemical binding]; other site 561231006178 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 561231006179 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 561231006180 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 561231006181 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 561231006182 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 561231006183 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 561231006184 S-adenosylmethionine binding site [chemical binding]; other site 561231006185 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 561231006186 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 561231006187 mce related protein; Region: MCE; pfam02470 561231006188 mce related protein; Region: MCE; pfam02470 561231006189 mce related protein; Region: MCE; pfam02470 561231006190 mce related protein; Region: MCE; pfam02470 561231006191 mce related protein; Region: MCE; pfam02470 561231006192 mce related protein; Region: MCE; pfam02470 561231006193 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 561231006194 Paraquat-inducible protein A; Region: PqiA; pfam04403 561231006195 Paraquat-inducible protein A; Region: PqiA; pfam04403 561231006196 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 561231006197 GAF domain; Region: GAF_2; pfam13185 561231006198 ProP expression regulator; Provisional; Region: PRK04950 561231006199 ProQ/FINO family; Region: ProQ; smart00945 561231006200 carboxy-terminal protease; Provisional; Region: PRK11186 561231006201 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 561231006202 protein binding site [polypeptide binding]; other site 561231006203 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 561231006204 Catalytic dyad [active] 561231006205 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 561231006206 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231006207 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231006208 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 561231006209 substrate binding site [chemical binding]; other site 561231006210 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 561231006211 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 561231006212 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561231006213 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 561231006214 dimer interface [polypeptide binding]; other site 561231006215 conserved gate region; other site 561231006216 putative PBP binding loops; other site 561231006217 ABC-ATPase subunit interface; other site 561231006218 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561231006219 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 561231006220 dimer interface [polypeptide binding]; other site 561231006221 conserved gate region; other site 561231006222 putative PBP binding loops; other site 561231006223 ABC-ATPase subunit interface; other site 561231006224 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 561231006225 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 561231006226 Walker A/P-loop; other site 561231006227 ATP binding site [chemical binding]; other site 561231006228 Q-loop/lid; other site 561231006229 ABC transporter signature motif; other site 561231006230 Walker B; other site 561231006231 D-loop; other site 561231006232 H-loop/switch region; other site 561231006233 TOBE domain; Region: TOBE_2; pfam08402 561231006234 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 561231006235 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 561231006236 metal binding site [ion binding]; metal-binding site 561231006237 dimer interface [polypeptide binding]; other site 561231006238 Uncharacterized conserved protein [Function unknown]; Region: COG2850 561231006239 Cupin domain; Region: Cupin_2; cl17218 561231006240 sensor protein PhoQ; Provisional; Region: PRK10815 561231006241 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 561231006242 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 561231006243 dimer interface [polypeptide binding]; other site 561231006244 phosphorylation site [posttranslational modification] 561231006245 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 561231006246 ATP binding site [chemical binding]; other site 561231006247 Mg2+ binding site [ion binding]; other site 561231006248 G-X-G motif; other site 561231006249 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 561231006250 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 561231006251 active site 561231006252 phosphorylation site [posttranslational modification] 561231006253 intermolecular recognition site; other site 561231006254 dimerization interface [polypeptide binding]; other site 561231006255 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 561231006256 DNA binding site [nucleotide binding] 561231006257 adenylosuccinate lyase; Provisional; Region: PRK09285 561231006258 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 561231006259 tetramer interface [polypeptide binding]; other site 561231006260 active site 561231006261 putative lysogenization regulator; Reviewed; Region: PRK00218 561231006262 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 561231006263 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 561231006264 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 561231006265 nudix motif; other site 561231006266 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 561231006267 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 561231006268 active site 561231006269 isocitrate dehydrogenase; Validated; Region: PRK07362 561231006270 isocitrate dehydrogenase; Reviewed; Region: PRK07006 561231006271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 561231006272 Transposase; Region: HTH_Tnp_1; pfam01527 561231006273 Transposase IS200 like; Region: Y1_Tnp; pfam01797 561231006274 4Fe-4S binding domain; Region: Fer4_5; pfam12801 561231006275 4Fe-4S binding domain; Region: Fer4_5; pfam12801 561231006276 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 561231006277 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 561231006278 Mor transcription activator family; Region: Mor; pfam08765 561231006279 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 561231006280 non-specific DNA binding site [nucleotide binding]; other site 561231006281 salt bridge; other site 561231006282 Predicted transcriptional regulator [Transcription]; Region: COG2932 561231006283 sequence-specific DNA binding site [nucleotide binding]; other site 561231006284 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 561231006285 Catalytic site [active] 561231006286 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 561231006287 GAF domain; Region: GAF; pfam01590 561231006288 PAS domain S-box; Region: sensory_box; TIGR00229 561231006289 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 561231006290 putative active site [active] 561231006291 heme pocket [chemical binding]; other site 561231006292 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231006293 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231006294 metal binding site [ion binding]; metal-binding site 561231006295 active site 561231006296 I-site; other site 561231006297 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 561231006298 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 561231006299 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 561231006300 GAF domain; Region: GAF_3; pfam13492 561231006301 Histidine kinase; Region: His_kinase; pfam06580 561231006302 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 561231006303 ATP binding site [chemical binding]; other site 561231006304 Mg2+ binding site [ion binding]; other site 561231006305 G-X-G motif; other site 561231006306 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 561231006307 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 561231006308 active site 561231006309 phosphorylation site [posttranslational modification] 561231006310 intermolecular recognition site; other site 561231006311 dimerization interface [polypeptide binding]; other site 561231006312 LytTr DNA-binding domain; Region: LytTR; pfam04397 561231006313 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 561231006314 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 561231006315 putative substrate translocation pore; other site 561231006316 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561231006317 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561231006318 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 561231006319 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 561231006320 putative active site [active] 561231006321 catalytic site [active] 561231006322 putative metal binding site [ion binding]; other site 561231006323 oligomer interface [polypeptide binding]; other site 561231006324 heat shock protein HtpX; Provisional; Region: PRK05457 561231006325 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 561231006326 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 561231006327 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 561231006328 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 561231006329 dimerization interface [polypeptide binding]; other site 561231006330 putative Zn2+ binding site [ion binding]; other site 561231006331 putative DNA binding site [nucleotide binding]; other site 561231006332 Bacterial transcriptional regulator; Region: IclR; pfam01614 561231006333 YebO-like protein; Region: YebO; pfam13974 561231006334 aromatic amino acid transporter; Provisional; Region: PRK10238 561231006335 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 561231006336 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 561231006337 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 561231006338 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 561231006339 active site 561231006340 dimer interface [polypeptide binding]; other site 561231006341 motif 1; other site 561231006342 motif 2; other site 561231006343 motif 3; other site 561231006344 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 561231006345 anticodon binding site; other site 561231006346 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 561231006347 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 561231006348 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 561231006349 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 561231006350 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 561231006351 23S rRNA binding site [nucleotide binding]; other site 561231006352 L21 binding site [polypeptide binding]; other site 561231006353 L13 binding site [polypeptide binding]; other site 561231006354 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 561231006355 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 561231006356 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 561231006357 dimer interface [polypeptide binding]; other site 561231006358 motif 1; other site 561231006359 active site 561231006360 motif 2; other site 561231006361 motif 3; other site 561231006362 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 561231006363 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 561231006364 putative tRNA-binding site [nucleotide binding]; other site 561231006365 B3/4 domain; Region: B3_4; pfam03483 561231006366 tRNA synthetase B5 domain; Region: B5; smart00874 561231006367 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 561231006368 dimer interface [polypeptide binding]; other site 561231006369 motif 1; other site 561231006370 motif 3; other site 561231006371 motif 2; other site 561231006372 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 561231006373 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 561231006374 IHF dimer interface [polypeptide binding]; other site 561231006375 IHF - DNA interface [nucleotide binding]; other site 561231006376 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 561231006377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231006378 Coenzyme A binding pocket [chemical binding]; other site 561231006379 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 561231006380 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 561231006381 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561231006382 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 561231006383 Walker A/P-loop; other site 561231006384 ATP binding site [chemical binding]; other site 561231006385 Q-loop/lid; other site 561231006386 ABC transporter signature motif; other site 561231006387 Walker B; other site 561231006388 D-loop; other site 561231006389 H-loop/switch region; other site 561231006390 aromatic amino acid exporter; Provisional; Region: PRK11689 561231006391 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 561231006392 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 561231006393 homodimer interface [polypeptide binding]; other site 561231006394 NAD binding pocket [chemical binding]; other site 561231006395 ATP binding pocket [chemical binding]; other site 561231006396 Mg binding site [ion binding]; other site 561231006397 active-site loop [active] 561231006398 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 561231006399 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 561231006400 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561231006401 inner membrane protein; Provisional; Region: PRK11648 561231006402 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 561231006403 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561231006404 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 561231006405 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561231006406 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561231006407 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 561231006408 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561231006409 Walker A/P-loop; other site 561231006410 ATP binding site [chemical binding]; other site 561231006411 Q-loop/lid; other site 561231006412 ABC transporter signature motif; other site 561231006413 Walker B; other site 561231006414 D-loop; other site 561231006415 H-loop/switch region; other site 561231006416 TOBE domain; Region: TOBE; pfam03459 561231006417 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561231006418 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 561231006419 dimer interface [polypeptide binding]; other site 561231006420 conserved gate region; other site 561231006421 putative PBP binding loops; other site 561231006422 ABC-ATPase subunit interface; other site 561231006423 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 561231006424 dimer interface [polypeptide binding]; other site 561231006425 conserved gate region; other site 561231006426 putative PBP binding loops; other site 561231006427 ABC-ATPase subunit interface; other site 561231006428 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 561231006429 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 561231006430 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 561231006431 NADP binding site [chemical binding]; other site 561231006432 homodimer interface [polypeptide binding]; other site 561231006433 active site 561231006434 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 561231006435 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 561231006436 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 561231006437 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 561231006438 motif II; other site 561231006439 YniB-like protein; Region: YniB; pfam14002 561231006440 Phosphotransferase enzyme family; Region: APH; pfam01636 561231006441 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 561231006442 active site 561231006443 ATP binding site [chemical binding]; other site 561231006444 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 561231006445 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561231006446 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 561231006447 ABC-ATPase subunit interface; other site 561231006448 dimer interface [polypeptide binding]; other site 561231006449 putative PBP binding regions; other site 561231006450 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561231006451 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 561231006452 ABC-ATPase subunit interface; other site 561231006453 dimer interface [polypeptide binding]; other site 561231006454 putative PBP binding regions; other site 561231006455 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 561231006456 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 561231006457 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 561231006458 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 561231006459 metal binding site [ion binding]; metal-binding site 561231006460 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 561231006461 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 561231006462 DNA-binding site [nucleotide binding]; DNA binding site 561231006463 RNA-binding motif; other site 561231006464 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 561231006465 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 561231006466 S-adenosylmethionine binding site [chemical binding]; other site 561231006467 hypothetical protein; Provisional; Region: PRK11469 561231006468 Domain of unknown function DUF; Region: DUF204; pfam02659 561231006469 Domain of unknown function DUF; Region: DUF204; pfam02659 561231006470 hypothetical protein; Provisional; Region: PRK02913 561231006471 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 561231006472 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 561231006473 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 561231006474 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 561231006475 active pocket/dimerization site; other site 561231006476 active site 561231006477 phosphorylation site [posttranslational modification] 561231006478 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 561231006479 active site 561231006480 phosphorylation site [posttranslational modification] 561231006481 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 561231006482 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 561231006483 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 561231006484 Transporter associated domain; Region: CorC_HlyC; smart01091 561231006485 Transposase IS200 like; Region: Y1_Tnp; pfam01797 561231006486 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 561231006487 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 561231006488 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 561231006489 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 561231006490 putative active site [active] 561231006491 putative CoA binding site [chemical binding]; other site 561231006492 nudix motif; other site 561231006493 metal binding site [ion binding]; metal-binding site 561231006494 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 561231006495 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 561231006496 chorismate binding enzyme; Region: Chorismate_bind; cl10555 561231006497 hypothetical protein; Provisional; Region: PRK05114 561231006498 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; cl10015 561231006499 homotrimer interaction site [polypeptide binding]; other site 561231006500 putative active site [active] 561231006501 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 561231006502 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 561231006503 DEAD_2; Region: DEAD_2; pfam06733 561231006504 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 561231006505 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 561231006506 Glycoprotease family; Region: Peptidase_M22; pfam00814 561231006507 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 561231006508 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 561231006509 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561231006510 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 561231006511 acyl-activating enzyme (AAE) consensus motif; other site 561231006512 putative AMP binding site [chemical binding]; other site 561231006513 putative active site [active] 561231006514 putative CoA binding site [chemical binding]; other site 561231006515 ribonuclease D; Provisional; Region: PRK10829 561231006516 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 561231006517 catalytic site [active] 561231006518 putative active site [active] 561231006519 putative substrate binding site [chemical binding]; other site 561231006520 HRDC domain; Region: HRDC; pfam00570 561231006521 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 561231006522 cell division inhibitor MinD; Provisional; Region: PRK10818 561231006523 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 561231006524 Switch I; other site 561231006525 Switch II; other site 561231006526 septum formation inhibitor; Reviewed; Region: minC; PRK03511 561231006527 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 561231006528 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 561231006529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 561231006530 hypothetical protein; Provisional; Region: PRK10691 561231006531 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 561231006532 hypothetical protein; Provisional; Region: PRK05170 561231006533 Glycogen synthesis protein; Region: GlgS; cl11663 561231006534 disulfide bond formation protein B; Provisional; Region: PRK01749 561231006535 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 561231006536 fatty acid metabolism regulator; Provisional; Region: PRK04984 561231006537 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231006538 DNA-binding site [nucleotide binding]; DNA binding site 561231006539 FadR C-terminal domain; Region: FadR_C; pfam07840 561231006540 SpoVR family protein; Provisional; Region: PRK11767 561231006541 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 561231006542 Class I aldolases; Region: Aldolase_Class_I; cl17187 561231006543 catalytic residue [active] 561231006544 AAA domain; Region: AAA_17; pfam13207 561231006545 AAA domain; Region: AAA_18; pfam13238 561231006546 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561231006547 active site 561231006548 phosphorylation site [posttranslational modification] 561231006549 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 561231006550 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 561231006551 active site 561231006552 P-loop; other site 561231006553 phosphorylation site [posttranslational modification] 561231006554 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 561231006555 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 561231006556 active site 561231006557 ADP/pyrophosphate binding site [chemical binding]; other site 561231006558 dimerization interface [polypeptide binding]; other site 561231006559 allosteric effector site; other site 561231006560 fructose-1,6-bisphosphate binding site; other site 561231006561 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 561231006562 hydroxyglutarate oxidase; Provisional; Region: PRK11728 561231006563 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 561231006564 putative substrate translocation pore; other site 561231006565 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 561231006566 hypothetical protein; Provisional; Region: PRK05325 561231006567 PrkA family serine protein kinase; Provisional; Region: PRK15455 561231006568 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 561231006569 Walker A motif; other site 561231006570 ATP binding site [chemical binding]; other site 561231006571 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 561231006572 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 561231006573 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 561231006574 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561231006575 active site 561231006576 catalytic tetrad [active] 561231006577 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 561231006578 active site 561231006579 phosphate binding residues; other site 561231006580 catalytic residues [active] 561231006581 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 561231006582 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 561231006583 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 561231006584 methionine sulfoxide reductase B; Provisional; Region: PRK00222 561231006585 SelR domain; Region: SelR; pfam01641 561231006586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 561231006587 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 561231006588 Isochorismatase family; Region: Isochorismatase; pfam00857 561231006589 catalytic triad [active] 561231006590 metal binding site [ion binding]; metal-binding site 561231006591 conserved cis-peptide bond; other site 561231006592 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 561231006593 active site 561231006594 homodimer interface [polypeptide binding]; other site 561231006595 protease 4; Provisional; Region: PRK10949 561231006596 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 561231006597 tandem repeat interface [polypeptide binding]; other site 561231006598 oligomer interface [polypeptide binding]; other site 561231006599 active site residues [active] 561231006600 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 561231006601 tandem repeat interface [polypeptide binding]; other site 561231006602 oligomer interface [polypeptide binding]; other site 561231006603 active site residues [active] 561231006604 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 561231006605 putative FMN binding site [chemical binding]; other site 561231006606 DNA topoisomerase III; Provisional; Region: PRK07726 561231006607 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 561231006608 active site 561231006609 putative interdomain interaction site [polypeptide binding]; other site 561231006610 putative metal-binding site [ion binding]; other site 561231006611 putative nucleotide binding site [chemical binding]; other site 561231006612 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 561231006613 domain I; other site 561231006614 DNA binding groove [nucleotide binding] 561231006615 phosphate binding site [ion binding]; other site 561231006616 domain II; other site 561231006617 domain III; other site 561231006618 nucleotide binding site [chemical binding]; other site 561231006619 catalytic site [active] 561231006620 domain IV; other site 561231006621 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 561231006622 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 561231006623 putative catalytic site [active] 561231006624 putative phosphate binding site [ion binding]; other site 561231006625 active site 561231006626 metal binding site A [ion binding]; metal-binding site 561231006627 DNA binding site [nucleotide binding] 561231006628 putative AP binding site [nucleotide binding]; other site 561231006629 putative metal binding site B [ion binding]; other site 561231006630 Predicted membrane protein [Function unknown]; Region: COG2860 561231006631 UPF0126 domain; Region: UPF0126; pfam03458 561231006632 UPF0126 domain; Region: UPF0126; pfam03458 561231006633 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561231006634 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 561231006635 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 561231006636 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 561231006637 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 561231006638 putative active site [active] 561231006639 putative substrate binding site [chemical binding]; other site 561231006640 putative cosubstrate binding site; other site 561231006641 catalytic site [active] 561231006642 hypothetical protein; Provisional; Region: PRK04233 561231006643 hypothetical protein; Provisional; Region: PRK10279 561231006644 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 561231006645 active site 561231006646 nucleophile elbow; other site 561231006647 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 561231006648 active site 561231006649 response regulator of RpoS; Provisional; Region: PRK10693 561231006650 phosphorylation site [posttranslational modification] 561231006651 intermolecular recognition site; other site 561231006652 dimerization interface [polypeptide binding]; other site 561231006653 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 561231006654 active site 561231006655 tetramer interface; other site 561231006656 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 561231006657 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 561231006658 thymidine kinase; Provisional; Region: PRK04296 561231006659 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 561231006660 ATP binding site [chemical binding]; other site 561231006661 Walker A motif; other site 561231006662 Walker B motif; other site 561231006663 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 561231006664 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 561231006665 putative catalytic cysteine [active] 561231006666 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 561231006667 putative active site [active] 561231006668 metal binding site [ion binding]; metal-binding site 561231006669 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 561231006670 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 561231006671 peptide binding site [polypeptide binding]; other site 561231006672 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 561231006673 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 561231006674 peptide binding site [polypeptide binding]; other site 561231006675 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 561231006676 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 561231006677 dimer interface [polypeptide binding]; other site 561231006678 conserved gate region; other site 561231006679 putative PBP binding loops; other site 561231006680 ABC-ATPase subunit interface; other site 561231006681 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 561231006682 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561231006683 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 561231006684 dimer interface [polypeptide binding]; other site 561231006685 conserved gate region; other site 561231006686 ABC-ATPase subunit interface; other site 561231006687 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 561231006688 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231006689 Walker A/P-loop; other site 561231006690 ATP binding site [chemical binding]; other site 561231006691 Q-loop/lid; other site 561231006692 ABC transporter signature motif; other site 561231006693 Walker B; other site 561231006694 D-loop; other site 561231006695 H-loop/switch region; other site 561231006696 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 561231006697 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 561231006698 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231006699 Walker A/P-loop; other site 561231006700 ATP binding site [chemical binding]; other site 561231006701 Q-loop/lid; other site 561231006702 ABC transporter signature motif; other site 561231006703 Walker B; other site 561231006704 D-loop; other site 561231006705 H-loop/switch region; other site 561231006706 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 561231006707 dsDNA-mimic protein; Reviewed; Region: PRK05094 561231006708 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 561231006709 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 561231006710 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 561231006711 putative active site [active] 561231006712 catalytic site [active] 561231006713 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 561231006714 putative active site [active] 561231006715 catalytic site [active] 561231006716 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 561231006717 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561231006718 dimer interface [polypeptide binding]; other site 561231006719 ligand binding site [chemical binding]; other site 561231006720 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 561231006721 dimerization interface [polypeptide binding]; other site 561231006722 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231006723 dimer interface [polypeptide binding]; other site 561231006724 putative CheW interface [polypeptide binding]; other site 561231006725 YciI-like protein; Reviewed; Region: PRK11370 561231006726 transport protein TonB; Provisional; Region: PRK10819 561231006727 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 561231006728 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 561231006729 intracellular septation protein A; Reviewed; Region: PRK00259 561231006730 hypothetical protein; Provisional; Region: PRK02868 561231006731 outer membrane protein W; Provisional; Region: PRK10959 561231006732 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 561231006733 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 561231006734 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 561231006735 substrate binding site [chemical binding]; other site 561231006736 active site 561231006737 catalytic residues [active] 561231006738 heterodimer interface [polypeptide binding]; other site 561231006739 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 561231006740 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 561231006741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231006742 catalytic residue [active] 561231006743 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 561231006744 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 561231006745 active site 561231006746 ribulose/triose binding site [chemical binding]; other site 561231006747 phosphate binding site [ion binding]; other site 561231006748 substrate (anthranilate) binding pocket [chemical binding]; other site 561231006749 product (indole) binding pocket [chemical binding]; other site 561231006750 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 561231006751 active site 561231006752 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 561231006753 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 561231006754 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 561231006755 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 561231006756 Glutamine amidotransferase class-I; Region: GATase; pfam00117 561231006757 glutamine binding [chemical binding]; other site 561231006758 catalytic triad [active] 561231006759 anthranilate synthase component I; Provisional; Region: PRK13564 561231006760 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 561231006761 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 561231006762 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 561231006763 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231006764 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 561231006765 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 561231006766 active site 561231006767 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 561231006768 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 561231006769 active site 561231006770 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 561231006771 hypothetical protein; Provisional; Region: PRK11630 561231006772 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 561231006773 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 561231006774 RNA binding surface [nucleotide binding]; other site 561231006775 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 561231006776 probable active site [active] 561231006777 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 561231006778 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 561231006779 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 561231006780 homodimer interface [polypeptide binding]; other site 561231006781 Walker A motif; other site 561231006782 ATP binding site [chemical binding]; other site 561231006783 hydroxycobalamin binding site [chemical binding]; other site 561231006784 Walker B motif; other site 561231006785 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 561231006786 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561231006787 NAD(P) binding site [chemical binding]; other site 561231006788 active site 561231006789 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 561231006790 putative inner membrane peptidase; Provisional; Region: PRK11778 561231006791 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 561231006792 tandem repeat interface [polypeptide binding]; other site 561231006793 oligomer interface [polypeptide binding]; other site 561231006794 active site residues [active] 561231006795 hypothetical protein; Provisional; Region: PRK11037 561231006796 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 561231006797 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 561231006798 active site 561231006799 interdomain interaction site; other site 561231006800 putative metal-binding site [ion binding]; other site 561231006801 nucleotide binding site [chemical binding]; other site 561231006802 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 561231006803 domain I; other site 561231006804 DNA binding groove [nucleotide binding] 561231006805 phosphate binding site [ion binding]; other site 561231006806 domain II; other site 561231006807 domain III; other site 561231006808 nucleotide binding site [chemical binding]; other site 561231006809 catalytic site [active] 561231006810 domain IV; other site 561231006811 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561231006812 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561231006813 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 561231006814 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 561231006815 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 561231006816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231006817 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 561231006818 substrate binding site [chemical binding]; other site 561231006819 putative dimerization interface [polypeptide binding]; other site 561231006820 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 561231006821 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 561231006822 putative substrate translocation pore; other site 561231006823 POT family; Region: PTR2; pfam00854 561231006824 endonuclease III; Provisional; Region: PRK10702 561231006825 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 561231006826 minor groove reading motif; other site 561231006827 helix-hairpin-helix signature motif; other site 561231006828 substrate binding pocket [chemical binding]; other site 561231006829 active site 561231006830 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 561231006831 electron transport complex RsxE subunit; Provisional; Region: PRK12405 561231006832 electron transport complex protein RnfG; Validated; Region: PRK01908 561231006833 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 561231006834 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 561231006835 SLBB domain; Region: SLBB; pfam10531 561231006836 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 561231006837 electron transport complex protein RnfB; Provisional; Region: PRK05113 561231006838 Putative Fe-S cluster; Region: FeS; pfam04060 561231006839 4Fe-4S binding domain; Region: Fer4; pfam00037 561231006840 electron transport complex protein RsxA; Provisional; Region: PRK05151 561231006841 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 561231006842 L-arabinose isomerase; Provisional; Region: PRK02929 561231006843 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 561231006844 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 561231006845 trimer interface [polypeptide binding]; other site 561231006846 putative substrate binding site [chemical binding]; other site 561231006847 putative metal binding site [ion binding]; other site 561231006848 ribulokinase; Provisional; Region: PRK04123 561231006849 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 561231006850 N- and C-terminal domain interface [polypeptide binding]; other site 561231006851 active site 561231006852 MgATP binding site [chemical binding]; other site 561231006853 catalytic site [active] 561231006854 metal binding site [ion binding]; metal-binding site 561231006855 carbohydrate binding site [chemical binding]; other site 561231006856 homodimer interface [polypeptide binding]; other site 561231006857 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 561231006858 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 561231006859 ligand binding site [chemical binding]; other site 561231006860 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 561231006861 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561231006862 Walker A/P-loop; other site 561231006863 ATP binding site [chemical binding]; other site 561231006864 Q-loop/lid; other site 561231006865 ABC transporter signature motif; other site 561231006866 Walker B; other site 561231006867 D-loop; other site 561231006868 H-loop/switch region; other site 561231006869 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561231006870 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561231006871 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231006872 TM-ABC transporter signature motif; other site 561231006873 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 561231006874 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561231006875 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231006876 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231006877 putative oxidoreductase; Provisional; Region: PRK11579 561231006878 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561231006879 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561231006880 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 561231006881 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 561231006882 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 561231006883 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 561231006884 SnoaL-like domain; Region: SnoaL_3; pfam13474 561231006885 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 561231006886 adenosine deaminase; Provisional; Region: PRK09358 561231006887 active site 561231006888 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 561231006889 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 561231006890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 561231006891 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 561231006892 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 561231006893 fumarate hydratase; Reviewed; Region: fumC; PRK00485 561231006894 Class II fumarases; Region: Fumarase_classII; cd01362 561231006895 active site 561231006896 tetramer interface [polypeptide binding]; other site 561231006897 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 561231006898 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 561231006899 putative substrate translocation pore; other site 561231006900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231006901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231006902 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 561231006903 dimerization interface [polypeptide binding]; other site 561231006904 substrate binding pocket [chemical binding]; other site 561231006905 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 561231006906 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 561231006907 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561231006908 putative dithiobiotin synthetase; Provisional; Region: PRK12374 561231006909 AAA domain; Region: AAA_26; pfam13500 561231006910 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 561231006911 putative substrate translocation pore; other site 561231006912 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561231006913 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 561231006914 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 561231006915 hypothetical protein; Provisional; Region: PRK13659 561231006916 malonic semialdehyde reductase; Provisional; Region: PRK10538 561231006917 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 561231006918 putative NAD(P) binding site [chemical binding]; other site 561231006919 homodimer interface [polypeptide binding]; other site 561231006920 homotetramer interface [polypeptide binding]; other site 561231006921 active site 561231006922 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 561231006923 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 561231006924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231006925 homodimer interface [polypeptide binding]; other site 561231006926 catalytic residue [active] 561231006927 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 561231006928 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 561231006929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231006930 catalytic residue [active] 561231006931 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 561231006932 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 561231006933 inhibitor-cofactor binding pocket; inhibition site 561231006934 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231006935 catalytic residue [active] 561231006936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 561231006937 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 561231006938 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 561231006939 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 561231006940 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 561231006941 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 561231006942 Putative methyltransferase; Region: Methyltransf_20; pfam12147 561231006943 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 561231006944 active site 561231006945 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 561231006946 active site 561231006947 catalytic residues [active] 561231006948 FlxA-like protein; Region: FlxA; pfam14282 561231006949 SnoaL-like domain; Region: SnoaL_2; pfam12680 561231006950 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 561231006951 classical (c) SDRs; Region: SDR_c; cd05233 561231006952 NAD(P) binding site [chemical binding]; other site 561231006953 active site 561231006954 YCII-related domain; Region: YCII; cl00999 561231006955 short chain dehydrogenase; Provisional; Region: PRK06179 561231006956 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 561231006957 NADP binding site [chemical binding]; other site 561231006958 active site 561231006959 steroid binding site; other site 561231006960 Predicted transcriptional regulators [Transcription]; Region: COG1733 561231006961 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 561231006962 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 561231006963 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 561231006964 hypothetical protein; Provisional; Region: PRK10515 561231006965 Cache domain; Region: Cache_1; pfam02743 561231006966 HAMP domain; Region: HAMP; pfam00672 561231006967 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231006968 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231006969 dimer interface [polypeptide binding]; other site 561231006970 putative CheW interface [polypeptide binding]; other site 561231006971 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231006972 Coenzyme A binding pocket [chemical binding]; other site 561231006973 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561231006974 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 561231006975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 561231006976 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231006977 Cytochrome b562; Region: Cytochrom_B562; pfam07361 561231006978 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231006979 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231006980 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561231006981 putative effector binding pocket; other site 561231006982 dimerization interface [polypeptide binding]; other site 561231006983 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 561231006984 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 561231006985 putative NAD(P) binding site [chemical binding]; other site 561231006986 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 561231006987 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 561231006988 Virulence factor SrfB; Region: SrfB; pfam07520 561231006989 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 561231006990 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 561231006991 putative catalytic site [active] 561231006992 putative metal binding site [ion binding]; other site 561231006993 putative phosphate binding site [ion binding]; other site 561231006994 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 561231006995 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 561231006996 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561231006997 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 561231006998 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 561231006999 active site 561231007000 phosphorylation site [posttranslational modification] 561231007001 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 561231007002 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 561231007003 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 561231007004 active pocket/dimerization site; other site 561231007005 active site 561231007006 phosphorylation site [posttranslational modification] 561231007007 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 561231007008 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 561231007009 active site 561231007010 dimer interface [polypeptide binding]; other site 561231007011 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 561231007012 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 561231007013 dimer interface [polypeptide binding]; other site 561231007014 active site 561231007015 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 561231007016 putative active site [active] 561231007017 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 561231007018 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 561231007019 intersubunit interface [polypeptide binding]; other site 561231007020 active site 561231007021 zinc binding site [ion binding]; other site 561231007022 Na+ binding site [ion binding]; other site 561231007023 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561231007024 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561231007025 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561231007026 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561231007027 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561231007028 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 561231007029 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 561231007030 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 561231007031 DNA binding site [nucleotide binding] 561231007032 active site 561231007033 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 561231007034 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 561231007035 ligand binding site [chemical binding]; other site 561231007036 flexible hinge region; other site 561231007037 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 561231007038 putative switch regulator; other site 561231007039 non-specific DNA interactions [nucleotide binding]; other site 561231007040 DNA binding site [nucleotide binding] 561231007041 sequence specific DNA binding site [nucleotide binding]; other site 561231007042 putative cAMP binding site [chemical binding]; other site 561231007043 universal stress protein UspE; Provisional; Region: PRK11175 561231007044 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 561231007045 Ligand Binding Site [chemical binding]; other site 561231007046 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 561231007047 Ligand Binding Site [chemical binding]; other site 561231007048 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 561231007049 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 561231007050 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 561231007051 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 561231007052 ligand binding site [chemical binding]; other site 561231007053 homodimer interface [polypeptide binding]; other site 561231007054 NAD(P) binding site [chemical binding]; other site 561231007055 trimer interface B [polypeptide binding]; other site 561231007056 trimer interface A [polypeptide binding]; other site 561231007057 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 561231007058 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561231007059 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561231007060 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561231007061 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 561231007062 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561231007063 hypothetical protein; Provisional; Region: PRK10941 561231007064 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 561231007065 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 561231007066 binding surface 561231007067 TPR motif; other site 561231007068 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 561231007069 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 561231007070 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 561231007071 peptide chain release factor 1; Validated; Region: prfA; PRK00591 561231007072 This domain is found in peptide chain release factors; Region: PCRF; smart00937 561231007073 RF-1 domain; Region: RF-1; pfam00472 561231007074 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 561231007075 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 561231007076 tRNA; other site 561231007077 putative tRNA binding site [nucleotide binding]; other site 561231007078 putative NADP binding site [chemical binding]; other site 561231007079 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 561231007080 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 561231007081 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 561231007082 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 561231007083 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 561231007084 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 561231007085 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 561231007086 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 561231007087 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561231007088 active site 561231007089 hypothetical protein; Provisional; Region: PRK10692 561231007090 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 561231007091 putative active site [active] 561231007092 catalytic residue [active] 561231007093 GTP-binding protein YchF; Reviewed; Region: PRK09601 561231007094 YchF GTPase; Region: YchF; cd01900 561231007095 G1 box; other site 561231007096 GTP/Mg2+ binding site [chemical binding]; other site 561231007097 Switch I region; other site 561231007098 G2 box; other site 561231007099 Switch II region; other site 561231007100 G3 box; other site 561231007101 G4 box; other site 561231007102 G5 box; other site 561231007103 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 561231007104 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 561231007105 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 561231007106 RHS Repeat; Region: RHS_repeat; pfam05593 561231007107 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561231007108 RHS Repeat; Region: RHS_repeat; cl11982 561231007109 RHS Repeat; Region: RHS_repeat; pfam05593 561231007110 RHS Repeat; Region: RHS_repeat; cl11982 561231007111 RHS Repeat; Region: RHS_repeat; pfam05593 561231007112 RHS Repeat; Region: RHS_repeat; cl11982 561231007113 RHS protein; Region: RHS; pfam03527 561231007114 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561231007115 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 561231007116 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 561231007117 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 561231007118 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231007119 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 561231007120 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 561231007121 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561231007122 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561231007123 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561231007124 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 561231007125 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 561231007126 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 561231007127 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 561231007128 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561231007129 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561231007130 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 561231007131 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 561231007132 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561231007133 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 561231007134 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 561231007135 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561231007136 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561231007137 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 561231007138 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561231007139 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561231007140 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561231007141 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561231007142 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561231007143 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561231007144 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 561231007145 Catalytic domain of Protein Kinases; Region: PKc; cd00180 561231007146 active site 561231007147 ATP binding site [chemical binding]; other site 561231007148 substrate binding site [chemical binding]; other site 561231007149 activation loop (A-loop); other site 561231007150 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 561231007151 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 561231007152 Walker A motif; other site 561231007153 ATP binding site [chemical binding]; other site 561231007154 Walker B motif; other site 561231007155 arginine finger; other site 561231007156 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 561231007157 Walker A motif; other site 561231007158 ATP binding site [chemical binding]; other site 561231007159 Walker B motif; other site 561231007160 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 561231007161 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 561231007162 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 561231007163 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 561231007164 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 561231007165 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 561231007166 ImpE protein; Region: ImpE; pfam07024 561231007167 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 561231007168 active site 561231007169 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 561231007170 phosphopeptide binding site; other site 561231007171 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 561231007172 Protein of unknown function (DUF796); Region: DUF796; pfam05638 561231007173 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 561231007174 Protein of unknown function (DUF877); Region: DUF877; pfam05943 561231007175 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 561231007176 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 561231007177 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 561231007178 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 561231007179 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 561231007180 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 561231007181 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 561231007182 hypothetical protein; Provisional; Region: PRK07033 561231007183 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 561231007184 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 561231007185 ligand binding site [chemical binding]; other site 561231007186 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 561231007187 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 561231007188 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 561231007189 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 561231007190 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 561231007191 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561231007192 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 561231007193 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561231007194 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 561231007195 ABC-ATPase subunit interface; other site 561231007196 dimer interface [polypeptide binding]; other site 561231007197 putative PBP binding regions; other site 561231007198 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 561231007199 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 561231007200 metal binding site [ion binding]; metal-binding site 561231007201 RNA ligase; Region: RNA_ligase; pfam09414 561231007202 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561231007203 Zn2+ binding site [ion binding]; other site 561231007204 Mg2+ binding site [ion binding]; other site 561231007205 AAA domain; Region: AAA_33; pfam13671 561231007206 AAA domain; Region: AAA_17; pfam13207 561231007207 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 561231007208 active site 561231007209 metal binding site [ion binding]; metal-binding site 561231007210 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561231007211 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 561231007212 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 561231007213 active site 561231007214 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 561231007215 beta-galactosidase; Region: BGL; TIGR03356 561231007216 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 561231007217 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561231007218 active site turn [active] 561231007219 phosphorylation site [posttranslational modification] 561231007220 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 561231007221 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561231007222 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231007223 DNA binding site [nucleotide binding] 561231007224 domain linker motif; other site 561231007225 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 561231007226 dimerization interface (closed form) [polypeptide binding]; other site 561231007227 ligand binding site [chemical binding]; other site 561231007228 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 561231007229 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 561231007230 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 561231007231 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 561231007232 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 561231007233 metal binding site [ion binding]; metal-binding site 561231007234 dimer interface [polypeptide binding]; other site 561231007235 Flavin Reductases; Region: FlaRed; cl00801 561231007236 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 561231007237 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 561231007238 active site 561231007239 non-prolyl cis peptide bond; other site 561231007240 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231007241 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561231007242 substrate binding pocket [chemical binding]; other site 561231007243 membrane-bound complex binding site; other site 561231007244 hinge residues; other site 561231007245 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231007246 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561231007247 substrate binding pocket [chemical binding]; other site 561231007248 membrane-bound complex binding site; other site 561231007249 hinge residues; other site 561231007250 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231007251 Coenzyme A binding pocket [chemical binding]; other site 561231007252 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 561231007253 dimer interface [polypeptide binding]; other site 561231007254 conserved gate region; other site 561231007255 putative PBP binding loops; other site 561231007256 ABC-ATPase subunit interface; other site 561231007257 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561231007258 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561231007259 Walker A/P-loop; other site 561231007260 ATP binding site [chemical binding]; other site 561231007261 Q-loop/lid; other site 561231007262 ABC transporter signature motif; other site 561231007263 Walker B; other site 561231007264 D-loop; other site 561231007265 H-loop/switch region; other site 561231007266 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 561231007267 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 561231007268 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 561231007269 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 561231007270 Walker A/P-loop; other site 561231007271 ATP binding site [chemical binding]; other site 561231007272 Q-loop/lid; other site 561231007273 ABC transporter signature motif; other site 561231007274 Walker B; other site 561231007275 D-loop; other site 561231007276 H-loop/switch region; other site 561231007277 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 561231007278 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 561231007279 Walker A/P-loop; other site 561231007280 ATP binding site [chemical binding]; other site 561231007281 Q-loop/lid; other site 561231007282 ABC transporter signature motif; other site 561231007283 Walker B; other site 561231007284 D-loop; other site 561231007285 H-loop/switch region; other site 561231007286 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 561231007287 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 561231007288 TM-ABC transporter signature motif; other site 561231007289 HEAT repeats; Region: HEAT_2; pfam13646 561231007290 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 561231007291 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231007292 TM-ABC transporter signature motif; other site 561231007293 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 561231007294 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 561231007295 putative ligand binding site [chemical binding]; other site 561231007296 Transcriptional regulators [Transcription]; Region: GntR; COG1802 561231007297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231007298 DNA-binding site [nucleotide binding]; DNA binding site 561231007299 FCD domain; Region: FCD; pfam07729 561231007300 urea carboxylase; Region: urea_carbox; TIGR02712 561231007301 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561231007302 ATP-grasp domain; Region: ATP-grasp_4; cl17255 561231007303 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 561231007304 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 561231007305 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 561231007306 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 561231007307 carboxyltransferase (CT) interaction site; other site 561231007308 biotinylation site [posttranslational modification]; other site 561231007309 allophanate hydrolase; Provisional; Region: PRK08186 561231007310 Amidase; Region: Amidase; cl11426 561231007311 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 561231007312 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 561231007313 inhibitor binding site; inhibition site 561231007314 active site 561231007315 putative symporter YagG; Provisional; Region: PRK09669 561231007316 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 561231007317 Cupin domain; Region: Cupin_2; cl17218 561231007318 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231007319 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231007320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231007321 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561231007322 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561231007323 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561231007324 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 561231007325 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 561231007326 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 561231007327 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561231007328 Transposase IS200 like; Region: Y1_Tnp; pfam01797 561231007329 haemagglutination activity domain; Region: Haemagg_act; pfam05860 561231007330 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561231007331 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561231007332 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561231007333 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561231007334 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561231007335 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561231007336 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 561231007337 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 561231007338 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 561231007339 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 561231007340 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231007341 DNA-binding site [nucleotide binding]; DNA binding site 561231007342 FCD domain; Region: FCD; pfam07729 561231007343 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 561231007344 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 561231007345 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 561231007346 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231007347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231007348 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 561231007349 dimerization interface [polypeptide binding]; other site 561231007350 hypothetical protein; Provisional; Region: PRK07079 561231007351 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 561231007352 metal binding site [ion binding]; metal-binding site 561231007353 putative dimer interface [polypeptide binding]; other site 561231007354 Bor protein; Region: Lambda_Bor; pfam06291 561231007355 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 561231007356 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 561231007357 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 561231007358 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 561231007359 active site 561231007360 octamer interface [polypeptide binding]; other site 561231007361 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 561231007362 dimer interface [polypeptide binding]; other site 561231007363 conserved gate region; other site 561231007364 ABC-ATPase subunit interface; other site 561231007365 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 561231007366 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 561231007367 Walker A/P-loop; other site 561231007368 ATP binding site [chemical binding]; other site 561231007369 Q-loop/lid; other site 561231007370 ABC transporter signature motif; other site 561231007371 Walker B; other site 561231007372 D-loop; other site 561231007373 H-loop/switch region; other site 561231007374 NIL domain; Region: NIL; pfam09383 561231007375 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 561231007376 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 561231007377 motif II; other site 561231007378 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 561231007379 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 561231007380 active site 561231007381 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561231007382 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 561231007383 dimerization interface [polypeptide binding]; other site 561231007384 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231007385 dimer interface [polypeptide binding]; other site 561231007386 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561231007387 putative CheW interface [polypeptide binding]; other site 561231007388 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 561231007389 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 561231007390 inhibitor-cofactor binding pocket; inhibition site 561231007391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231007392 catalytic residue [active] 561231007393 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 561231007394 active site 561231007395 ATP binding site [chemical binding]; other site 561231007396 substrate binding site [chemical binding]; other site 561231007397 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 561231007398 classical (c) SDRs; Region: SDR_c; cd05233 561231007399 NAD(P) binding site [chemical binding]; other site 561231007400 active site 561231007401 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561231007402 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 561231007403 dimer interface [polypeptide binding]; other site 561231007404 conserved gate region; other site 561231007405 putative PBP binding loops; other site 561231007406 ABC-ATPase subunit interface; other site 561231007407 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 561231007408 dimer interface [polypeptide binding]; other site 561231007409 conserved gate region; other site 561231007410 putative PBP binding loops; other site 561231007411 ABC-ATPase subunit interface; other site 561231007412 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 561231007413 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561231007414 succinic semialdehyde dehydrogenase; Region: PLN02278 561231007415 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 561231007416 tetramerization interface [polypeptide binding]; other site 561231007417 NAD(P) binding site [chemical binding]; other site 561231007418 catalytic residues [active] 561231007419 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 561231007420 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 561231007421 inhibitor-cofactor binding pocket; inhibition site 561231007422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231007423 catalytic residue [active] 561231007424 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 561231007425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231007426 DNA-binding site [nucleotide binding]; DNA binding site 561231007427 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 561231007428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231007429 homodimer interface [polypeptide binding]; other site 561231007430 catalytic residue [active] 561231007431 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561231007432 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 561231007433 Walker A/P-loop; other site 561231007434 ATP binding site [chemical binding]; other site 561231007435 Q-loop/lid; other site 561231007436 ABC transporter signature motif; other site 561231007437 Walker B; other site 561231007438 D-loop; other site 561231007439 H-loop/switch region; other site 561231007440 TOBE domain; Region: TOBE_2; pfam08402 561231007441 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561231007442 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 561231007443 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 561231007444 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 561231007445 active site 561231007446 C-terminal domain of Chitin Synthase catalyzes the incorporation of GlcNAc from substrate UDP-GlcNAc into chitin; Region: Chitin_synth_C; cd04190 561231007447 DXD motif; other site 561231007448 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 561231007449 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 561231007450 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 561231007451 inhibitor-cofactor binding pocket; inhibition site 561231007452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231007453 catalytic residue [active] 561231007454 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 561231007455 extended (e) SDRs; Region: SDR_e; cd08946 561231007456 NAD(P) binding site [chemical binding]; other site 561231007457 active site 561231007458 substrate binding site [chemical binding]; other site 561231007459 hypothetical protein; Provisional; Region: PRK10457 561231007460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 561231007461 YheO-like PAS domain; Region: PAS_6; pfam08348 561231007462 HTH domain; Region: HTH_22; pfam13309 561231007463 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 561231007464 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 561231007465 tetramer interface [polypeptide binding]; other site 561231007466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231007467 catalytic residue [active] 561231007468 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 561231007469 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 561231007470 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 561231007471 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 561231007472 dimer interface [polypeptide binding]; other site 561231007473 active site 561231007474 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561231007475 substrate binding site [chemical binding]; other site 561231007476 catalytic residue [active] 561231007477 MarR family; Region: MarR_2; cl17246 561231007478 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561231007479 EamA-like transporter family; Region: EamA; pfam00892 561231007480 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 561231007481 EamA-like transporter family; Region: EamA; pfam00892 561231007482 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 561231007483 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 561231007484 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 561231007485 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 561231007486 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 561231007487 [4Fe-4S] binding site [ion binding]; other site 561231007488 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 561231007489 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 561231007490 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 561231007491 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 561231007492 molybdopterin cofactor binding site; other site 561231007493 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 561231007494 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 561231007495 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 561231007496 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 561231007497 dimerization interface [polypeptide binding]; other site 561231007498 Histidine kinase; Region: HisKA_3; pfam07730 561231007499 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 561231007500 ATP binding site [chemical binding]; other site 561231007501 Mg2+ binding site [ion binding]; other site 561231007502 G-X-G motif; other site 561231007503 transcriptional regulator NarL; Provisional; Region: PRK10651 561231007504 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 561231007505 active site 561231007506 phosphorylation site [posttranslational modification] 561231007507 intermolecular recognition site; other site 561231007508 dimerization interface [polypeptide binding]; other site 561231007509 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 561231007510 DNA binding residues [nucleotide binding] 561231007511 dimerization interface [polypeptide binding]; other site 561231007512 Acyltransferase family; Region: Acyl_transf_3; pfam01757 561231007513 Protein of unknown function, DUF481; Region: DUF481; pfam04338 561231007514 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 561231007515 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 561231007516 putative active site pocket [active] 561231007517 dimerization interface [polypeptide binding]; other site 561231007518 putative catalytic residue [active] 561231007519 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 561231007520 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 561231007521 FAD binding pocket [chemical binding]; other site 561231007522 FAD binding motif [chemical binding]; other site 561231007523 phosphate binding motif [ion binding]; other site 561231007524 NAD binding pocket [chemical binding]; other site 561231007525 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 561231007526 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 561231007527 putative transporter; Provisional; Region: PRK11660 561231007528 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 561231007529 Sulfate transporter family; Region: Sulfate_transp; pfam00916 561231007530 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 561231007531 dihydromonapterin reductase; Provisional; Region: PRK06483 561231007532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561231007533 NAD(P) binding site [chemical binding]; other site 561231007534 active site 561231007535 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 561231007536 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 561231007537 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 561231007538 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 561231007539 active site 561231007540 phosphorylation site [posttranslational modification] 561231007541 intermolecular recognition site; other site 561231007542 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 561231007543 DNA binding site [nucleotide binding] 561231007544 sensor protein RstB; Provisional; Region: PRK10604 561231007545 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 561231007546 dimerization interface [polypeptide binding]; other site 561231007547 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 561231007548 dimer interface [polypeptide binding]; other site 561231007549 phosphorylation site [posttranslational modification] 561231007550 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 561231007551 ATP binding site [chemical binding]; other site 561231007552 Mg2+ binding site [ion binding]; other site 561231007553 G-X-G motif; other site 561231007554 acid shock protein precursor; Provisional; Region: PRK03577 561231007555 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 561231007556 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 561231007557 GAF domain; Region: GAF; pfam01590 561231007558 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231007559 metal binding site [ion binding]; metal-binding site 561231007560 I-site; other site 561231007561 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 561231007562 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 561231007563 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 561231007564 ATP binding site [chemical binding]; other site 561231007565 putative Mg++ binding site [ion binding]; other site 561231007566 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 561231007567 nucleotide binding region [chemical binding]; other site 561231007568 ATP-binding site [chemical binding]; other site 561231007569 Helicase associated domain (HA2); Region: HA2; pfam04408 561231007570 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 561231007571 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 561231007572 azoreductase; Reviewed; Region: PRK00170 561231007573 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561231007574 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 561231007575 hypothetical protein; Provisional; Region: PRK10695 561231007576 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 561231007577 PAS domain; Region: PAS_9; pfam13426 561231007578 putative active site [active] 561231007579 heme pocket [chemical binding]; other site 561231007580 HAMP domain; Region: HAMP; pfam00672 561231007581 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231007582 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231007583 dimer interface [polypeptide binding]; other site 561231007584 putative CheW interface [polypeptide binding]; other site 561231007585 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 561231007586 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 561231007587 putative ligand binding site [chemical binding]; other site 561231007588 putative NAD binding site [chemical binding]; other site 561231007589 catalytic site [active] 561231007590 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 561231007591 Domain of unknown function (DUF333); Region: DUF333; pfam03891 561231007592 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 561231007593 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 561231007594 Ligand Binding Site [chemical binding]; other site 561231007595 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 561231007596 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 561231007597 Cl binding site [ion binding]; other site 561231007598 oligomer interface [polypeptide binding]; other site 561231007599 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 561231007600 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 561231007601 peptide binding site [polypeptide binding]; other site 561231007602 murein peptide amidase A; Provisional; Region: PRK10602 561231007603 active site 561231007604 Zn binding site [ion binding]; other site 561231007605 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 561231007606 dimer interface [polypeptide binding]; other site 561231007607 catalytic triad [active] 561231007608 peroxidatic and resolving cysteines [active] 561231007609 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 561231007610 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 561231007611 putative aromatic amino acid binding site; other site 561231007612 PAS domain; Region: PAS; smart00091 561231007613 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 561231007614 Walker A motif; other site 561231007615 ATP binding site [chemical binding]; other site 561231007616 Walker B motif; other site 561231007617 arginine finger; other site 561231007618 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_1; cd05678 561231007619 hypothetical protein; Provisional; Region: PRK08201 561231007620 putative metal binding site [ion binding]; other site 561231007621 putative dimer interface [polypeptide binding]; other site 561231007622 hypothetical protein; Provisional; Region: PRK05415 561231007623 Domain of unknown function (DUF697); Region: DUF697; cl12064 561231007624 Predicted ATPase [General function prediction only]; Region: COG3106 561231007625 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 561231007626 phage shock protein C; Region: phageshock_pspC; TIGR02978 561231007627 phage shock protein B; Provisional; Region: pspB; PRK09458 561231007628 phage shock protein PspA; Provisional; Region: PRK10698 561231007629 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 561231007630 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 561231007631 Walker A motif; other site 561231007632 ATP binding site [chemical binding]; other site 561231007633 Walker B motif; other site 561231007634 arginine finger; other site 561231007635 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 561231007636 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 561231007637 Cellulose binding domain; Region: CBM_3; pfam00942 561231007638 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 561231007639 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 561231007640 peptide binding site [polypeptide binding]; other site 561231007641 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 561231007642 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 561231007643 putative PBP binding loops; other site 561231007644 dimer interface [polypeptide binding]; other site 561231007645 ABC-ATPase subunit interface; other site 561231007646 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 561231007647 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 561231007648 dimer interface [polypeptide binding]; other site 561231007649 conserved gate region; other site 561231007650 putative PBP binding loops; other site 561231007651 ABC-ATPase subunit interface; other site 561231007652 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 561231007653 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231007654 Walker A/P-loop; other site 561231007655 ATP binding site [chemical binding]; other site 561231007656 Q-loop/lid; other site 561231007657 ABC transporter signature motif; other site 561231007658 Walker B; other site 561231007659 D-loop; other site 561231007660 H-loop/switch region; other site 561231007661 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231007662 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 561231007663 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231007664 Walker A/P-loop; other site 561231007665 ATP binding site [chemical binding]; other site 561231007666 Q-loop/lid; other site 561231007667 ABC transporter signature motif; other site 561231007668 Walker B; other site 561231007669 D-loop; other site 561231007670 H-loop/switch region; other site 561231007671 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231007672 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 561231007673 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 561231007674 NAD binding site [chemical binding]; other site 561231007675 homotetramer interface [polypeptide binding]; other site 561231007676 homodimer interface [polypeptide binding]; other site 561231007677 substrate binding site [chemical binding]; other site 561231007678 active site 561231007679 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 561231007680 ApbE family; Region: ApbE; pfam02424 561231007681 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561231007682 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 561231007683 putative active site [active] 561231007684 putative FMN binding site [chemical binding]; other site 561231007685 putative substrate binding site [chemical binding]; other site 561231007686 putative catalytic residue [active] 561231007687 FMN-binding domain; Region: FMN_bind; cl01081 561231007688 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 561231007689 L-aspartate oxidase; Provisional; Region: PRK06175 561231007690 L-aspartate oxidase; Provisional; Region: PRK06175 561231007691 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 561231007692 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 561231007693 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 561231007694 putative active site [active] 561231007695 putative catalytic site [active] 561231007696 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 561231007697 D-galactonate transporter; Region: 2A0114; TIGR00893 561231007698 putative substrate translocation pore; other site 561231007699 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561231007700 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231007701 DNA binding site [nucleotide binding] 561231007702 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 561231007703 ligand binding site [chemical binding]; other site 561231007704 dimerization interface [polypeptide binding]; other site 561231007705 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231007706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231007707 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 561231007708 dimerization interface [polypeptide binding]; other site 561231007709 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 561231007710 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 561231007711 putative molybdopterin cofactor binding site [chemical binding]; other site 561231007712 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 561231007713 putative molybdopterin cofactor binding site; other site 561231007714 exoribonuclease II; Provisional; Region: PRK05054 561231007715 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 561231007716 RNB domain; Region: RNB; pfam00773 561231007717 S1 RNA binding domain; Region: S1; pfam00575 561231007718 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 561231007719 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561231007720 active site 561231007721 catalytic tetrad [active] 561231007722 carbon starvation protein A; Provisional; Region: PRK15015 561231007723 Carbon starvation protein CstA; Region: CstA; pfam02554 561231007724 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 561231007725 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 561231007726 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561231007727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231007728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231007729 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 561231007730 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 561231007731 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 561231007732 galactoside permease; Reviewed; Region: lacY; PRK09528 561231007733 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 561231007734 putative substrate translocation pore; other site 561231007735 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 561231007736 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; cd00398 561231007737 intersubunit interface [polypeptide binding]; other site 561231007738 active site 561231007739 Zn2+ binding site [ion binding]; other site 561231007740 lipoprotein; Provisional; Region: PRK10540 561231007741 translation initiation factor Sui1; Validated; Region: PRK06824 561231007742 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 561231007743 putative rRNA binding site [nucleotide binding]; other site 561231007744 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 561231007745 active site 561231007746 dimer interface [polypeptide binding]; other site 561231007747 tetratricopeptide repeat protein; Provisional; Region: PRK11788 561231007748 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 561231007749 TPR motif; other site 561231007750 binding surface 561231007751 Predicted membrane protein [Function unknown]; Region: COG3771 561231007752 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 561231007753 MarR family; Region: MarR_2; pfam12802 561231007754 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 561231007755 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 561231007756 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 561231007757 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 561231007758 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 561231007759 N- and C-terminal domain interface [polypeptide binding]; other site 561231007760 active site 561231007761 MgATP binding site [chemical binding]; other site 561231007762 catalytic site [active] 561231007763 metal binding site [ion binding]; metal-binding site 561231007764 putative homotetramer interface [polypeptide binding]; other site 561231007765 putative homodimer interface [polypeptide binding]; other site 561231007766 glycerol binding site [chemical binding]; other site 561231007767 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 561231007768 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 561231007769 PYR/PP interface [polypeptide binding]; other site 561231007770 dimer interface [polypeptide binding]; other site 561231007771 TPP binding site [chemical binding]; other site 561231007772 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 561231007773 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 561231007774 TPP-binding site [chemical binding]; other site 561231007775 dimer interface [polypeptide binding]; other site 561231007776 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561231007777 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231007778 TM-ABC transporter signature motif; other site 561231007779 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561231007780 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561231007781 Walker A/P-loop; other site 561231007782 ATP binding site [chemical binding]; other site 561231007783 Q-loop/lid; other site 561231007784 ABC transporter signature motif; other site 561231007785 Walker B; other site 561231007786 D-loop; other site 561231007787 H-loop/switch region; other site 561231007788 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561231007789 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 561231007790 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 561231007791 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 561231007792 ligand binding site [chemical binding]; other site 561231007793 dimerization interface [polypeptide binding]; other site 561231007794 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 561231007795 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 561231007796 active site 561231007797 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 561231007798 dimerization interface [polypeptide binding]; other site 561231007799 active site 561231007800 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 561231007801 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 561231007802 peptide binding site [polypeptide binding]; other site 561231007803 aconitate hydratase; Validated; Region: PRK09277 561231007804 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 561231007805 substrate binding site [chemical binding]; other site 561231007806 ligand binding site [chemical binding]; other site 561231007807 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 561231007808 substrate binding site [chemical binding]; other site 561231007809 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 561231007810 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561231007811 glutathionine S-transferase; Provisional; Region: PRK10542 561231007812 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 561231007813 C-terminal domain interface [polypeptide binding]; other site 561231007814 GSH binding site (G-site) [chemical binding]; other site 561231007815 dimer interface [polypeptide binding]; other site 561231007816 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 561231007817 N-terminal domain interface [polypeptide binding]; other site 561231007818 dimer interface [polypeptide binding]; other site 561231007819 substrate binding pocket (H-site) [chemical binding]; other site 561231007820 pyridoxamine kinase; Validated; Region: PRK05756 561231007821 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 561231007822 dimer interface [polypeptide binding]; other site 561231007823 pyridoxal binding site [chemical binding]; other site 561231007824 ATP binding site [chemical binding]; other site 561231007825 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 561231007826 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 561231007827 active site 561231007828 HIGH motif; other site 561231007829 dimer interface [polypeptide binding]; other site 561231007830 KMSKS motif; other site 561231007831 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 561231007832 RNA binding surface [nucleotide binding]; other site 561231007833 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 561231007834 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 561231007835 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 561231007836 lysozyme inhibitor; Provisional; Region: PRK11372 561231007837 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 561231007838 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 561231007839 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 561231007840 transcriptional regulator SlyA; Provisional; Region: PRK03573 561231007841 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 561231007842 Predicted Fe-S protein [General function prediction only]; Region: COG3313 561231007843 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561231007844 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 561231007845 dimer interface [polypeptide binding]; other site 561231007846 active site 561231007847 metal binding site [ion binding]; metal-binding site 561231007848 glutathione binding site [chemical binding]; other site 561231007849 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 561231007850 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 561231007851 dimer interface [polypeptide binding]; other site 561231007852 catalytic site [active] 561231007853 putative active site [active] 561231007854 putative substrate binding site [chemical binding]; other site 561231007855 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 561231007856 putative GSH binding site [chemical binding]; other site 561231007857 catalytic residues [active] 561231007858 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 561231007859 NlpC/P60 family; Region: NLPC_P60; pfam00877 561231007860 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 561231007861 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231007862 DNA binding site [nucleotide binding] 561231007863 domain linker motif; other site 561231007864 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 561231007865 dimerization interface [polypeptide binding]; other site 561231007866 ligand binding site [chemical binding]; other site 561231007867 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 561231007868 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 561231007869 S-adenosylmethionine binding site [chemical binding]; other site 561231007870 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 561231007871 Lumazine binding domain; Region: Lum_binding; pfam00677 561231007872 Lumazine binding domain; Region: Lum_binding; pfam00677 561231007873 multidrug efflux protein; Reviewed; Region: PRK01766 561231007874 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 561231007875 cation binding site [ion binding]; other site 561231007876 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 561231007877 L-lactate permease; Region: Lactate_perm; cl00701 561231007878 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 561231007879 Cysteine-rich domain; Region: CCG; pfam02754 561231007880 Cysteine-rich domain; Region: CCG; pfam02754 561231007881 iron-sulfur cluster-binding protein; Region: TIGR00273 561231007882 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 561231007883 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 561231007884 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 561231007885 Uncharacterized conserved protein [Function unknown]; Region: COG1556 561231007886 urea carboxylase; Region: urea_carbox; TIGR02712 561231007887 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561231007888 ATP-grasp domain; Region: ATP-grasp_4; cl17255 561231007889 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 561231007890 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 561231007891 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 561231007892 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 561231007893 carboxyltransferase (CT) interaction site; other site 561231007894 biotinylation site [posttranslational modification]; other site 561231007895 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 561231007896 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 561231007897 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 561231007898 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 561231007899 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561231007900 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561231007901 Walker A/P-loop; other site 561231007902 ATP binding site [chemical binding]; other site 561231007903 Q-loop/lid; other site 561231007904 ABC transporter signature motif; other site 561231007905 Walker B; other site 561231007906 D-loop; other site 561231007907 H-loop/switch region; other site 561231007908 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 561231007909 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561231007910 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 561231007911 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561231007912 MarR family; Region: MarR_2; cl17246 561231007913 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 561231007914 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 561231007915 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 561231007916 dimer interface [polypeptide binding]; other site 561231007917 active site 561231007918 heme binding site [chemical binding]; other site 561231007919 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 561231007920 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 561231007921 Transposase; Region: HTH_Tnp_1; pfam01527 561231007922 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 561231007923 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 561231007924 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 561231007925 Walker A motif; other site 561231007926 ATP binding site [chemical binding]; other site 561231007927 Walker B motif; other site 561231007928 arginine finger; other site 561231007929 Tetratricopeptide repeat; Region: TPR_12; pfam13424 561231007930 PAAR motif; Region: PAAR_motif; pfam05488 561231007931 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561231007932 RHS Repeat; Region: RHS_repeat; cl11982 561231007933 RHS Repeat; Region: RHS_repeat; pfam05593 561231007934 RHS Repeat; Region: RHS_repeat; pfam05593 561231007935 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 561231007936 RHS Repeat; Region: RHS_repeat; pfam05593 561231007937 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561231007938 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 561231007939 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 561231007940 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561231007941 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561231007942 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561231007943 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561231007944 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 561231007945 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 561231007946 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 561231007947 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 561231007948 NAD binding site [chemical binding]; other site 561231007949 ligand binding site [chemical binding]; other site 561231007950 catalytic site [active] 561231007951 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 561231007952 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 561231007953 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 561231007954 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561231007955 putative substrate translocation pore; other site 561231007956 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 561231007957 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 561231007958 transcriptional regulator NarP; Provisional; Region: PRK10403 561231007959 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 561231007960 active site 561231007961 phosphorylation site [posttranslational modification] 561231007962 intermolecular recognition site; other site 561231007963 dimerization interface [polypeptide binding]; other site 561231007964 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 561231007965 DNA binding residues [nucleotide binding] 561231007966 dimerization interface [polypeptide binding]; other site 561231007967 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 561231007968 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 561231007969 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 561231007970 dimerization interface [polypeptide binding]; other site 561231007971 Histidine kinase; Region: HisKA_3; pfam07730 561231007972 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 561231007973 ATP binding site [chemical binding]; other site 561231007974 Mg2+ binding site [ion binding]; other site 561231007975 G-X-G motif; other site 561231007976 ferredoxin-type protein; Provisional; Region: PRK10194 561231007977 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 561231007978 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 561231007979 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 561231007980 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 561231007981 [4Fe-4S] binding site [ion binding]; other site 561231007982 molybdopterin cofactor binding site; other site 561231007983 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 561231007984 molybdopterin cofactor binding site; other site 561231007985 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 561231007986 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 561231007987 4Fe-4S binding domain; Region: Fer4_5; pfam12801 561231007988 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 561231007989 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 561231007990 cytochrome c-type protein NapC; Provisional; Region: PRK10617 561231007991 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 561231007992 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 561231007993 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 561231007994 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 561231007995 binding surface 561231007996 TPR motif; other site 561231007997 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 561231007998 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 561231007999 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 561231008000 catalytic residues [active] 561231008001 central insert; other site 561231008002 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 561231008003 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 561231008004 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 561231008005 heme exporter protein CcmC; Region: ccmC; TIGR01191 561231008006 heme exporter protein CcmB; Region: ccmB; TIGR01190 561231008007 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 561231008008 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 561231008009 Walker A/P-loop; other site 561231008010 ATP binding site [chemical binding]; other site 561231008011 Q-loop/lid; other site 561231008012 ABC transporter signature motif; other site 561231008013 Walker B; other site 561231008014 D-loop; other site 561231008015 H-loop/switch region; other site 561231008016 TPR repeat; Region: TPR_11; pfam13414 561231008017 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 561231008018 binding surface 561231008019 TPR motif; other site 561231008020 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 561231008021 heme lyase subunit NrfE; Provisional; Region: PRK10369 561231008022 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 561231008023 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 561231008024 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 561231008025 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 561231008026 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 561231008027 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 561231008028 active site 561231008029 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 561231008030 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 561231008031 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 561231008032 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 561231008033 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 561231008034 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 561231008035 trimer interface; other site 561231008036 sugar binding site [chemical binding]; other site 561231008037 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 561231008038 beta-galactosidase; Region: BGL; TIGR03356 561231008039 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 561231008040 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561231008041 active site turn [active] 561231008042 phosphorylation site [posttranslational modification] 561231008043 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561231008044 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 561231008045 HPr interaction site; other site 561231008046 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561231008047 active site 561231008048 phosphorylation site [posttranslational modification] 561231008049 transcriptional antiterminator BglG; Provisional; Region: PRK09772 561231008050 CAT RNA binding domain; Region: CAT_RBD; smart01061 561231008051 PRD domain; Region: PRD; pfam00874 561231008052 PRD domain; Region: PRD; pfam00874 561231008053 pyruvate kinase; Provisional; Region: PRK09206 561231008054 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; cd00288 561231008055 domain interfaces; other site 561231008056 active site 561231008057 murein lipoprotein; Provisional; Region: PRK15396 561231008058 L,D-transpeptidase; Provisional; Region: PRK10190 561231008059 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 561231008060 cysteine desufuration protein SufE; Provisional; Region: PRK09296 561231008061 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 561231008062 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 561231008063 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561231008064 catalytic residue [active] 561231008065 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 561231008066 FeS assembly protein SufD; Region: sufD; TIGR01981 561231008067 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 561231008068 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 561231008069 Walker A/P-loop; other site 561231008070 ATP binding site [chemical binding]; other site 561231008071 Q-loop/lid; other site 561231008072 ABC transporter signature motif; other site 561231008073 Walker B; other site 561231008074 D-loop; other site 561231008075 H-loop/switch region; other site 561231008076 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 561231008077 putative ABC transporter; Region: ycf24; CHL00085 561231008078 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 561231008079 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 561231008080 CoenzymeA binding site [chemical binding]; other site 561231008081 subunit interaction site [polypeptide binding]; other site 561231008082 PHB binding site; other site 561231008083 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 561231008084 FAD binding domain; Region: FAD_binding_4; pfam01565 561231008085 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 561231008086 putative inner membrane protein; Provisional; Region: PRK10983 561231008087 Domain of unknown function DUF20; Region: UPF0118; pfam01594 561231008088 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 561231008089 ApbE family; Region: ApbE; pfam02424 561231008090 phosphoenolpyruvate synthase; Validated; Region: PRK06464 561231008091 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 561231008092 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 561231008093 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 561231008094 PEP synthetase regulatory protein; Provisional; Region: PRK05339 561231008095 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 561231008096 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561231008097 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 561231008098 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 561231008099 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 561231008100 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 561231008101 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 561231008102 putative hemin binding site; other site 561231008103 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561231008104 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 561231008105 ABC-ATPase subunit interface; other site 561231008106 dimer interface [polypeptide binding]; other site 561231008107 putative PBP binding regions; other site 561231008108 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 561231008109 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561231008110 Walker A/P-loop; other site 561231008111 ATP binding site [chemical binding]; other site 561231008112 Q-loop/lid; other site 561231008113 ABC transporter signature motif; other site 561231008114 Walker B; other site 561231008115 D-loop; other site 561231008116 H-loop/switch region; other site 561231008117 hypothetical protein; Validated; Region: PRK00029 561231008118 Uncharacterized conserved protein [Function unknown]; Region: COG0397 561231008119 EAL domain; Region: EAL; pfam00563 561231008120 high-affinity gluconate transporter; Provisional; Region: PRK14984 561231008121 gluconate transporter; Region: gntP; TIGR00791 561231008122 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 561231008123 ATP-binding site [chemical binding]; other site 561231008124 Gluconate-6-phosphate binding site [chemical binding]; other site 561231008125 Shikimate kinase; Region: SKI; pfam01202 561231008126 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 561231008127 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231008128 DNA binding site [nucleotide binding] 561231008129 domain linker motif; other site 561231008130 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 561231008131 putative ligand binding site [chemical binding]; other site 561231008132 putative dimerization interface [polypeptide binding]; other site 561231008133 phosphogluconate dehydratase; Validated; Region: PRK09054 561231008134 6-phosphogluconate dehydratase; Region: edd; TIGR01196 561231008135 NlpC/P60 family; Region: NLPC_P60; pfam00877 561231008136 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 561231008137 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561231008138 Walker A/P-loop; other site 561231008139 ATP binding site [chemical binding]; other site 561231008140 Q-loop/lid; other site 561231008141 ABC transporter signature motif; other site 561231008142 Walker B; other site 561231008143 D-loop; other site 561231008144 H-loop/switch region; other site 561231008145 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 561231008146 catalytic residues [active] 561231008147 dimer interface [polypeptide binding]; other site 561231008148 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561231008149 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 561231008150 ABC-ATPase subunit interface; other site 561231008151 dimer interface [polypeptide binding]; other site 561231008152 putative PBP binding regions; other site 561231008153 Methyltransferase domain; Region: Methyltransf_31; pfam13847 561231008154 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 561231008155 S-adenosylmethionine binding site [chemical binding]; other site 561231008156 Cupin domain; Region: Cupin_2; cl17218 561231008157 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 561231008158 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 561231008159 ligand binding site [chemical binding]; other site 561231008160 flexible hinge region; other site 561231008161 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 561231008162 NAD-dependent deacetylase; Provisional; Region: PRK00481 561231008163 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 561231008164 NAD+ binding site [chemical binding]; other site 561231008165 substrate binding site [chemical binding]; other site 561231008166 Zn binding site [ion binding]; other site 561231008167 fructokinase; Reviewed; Region: PRK09557 561231008168 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561231008169 nucleotide binding site [chemical binding]; other site 561231008170 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 561231008171 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561231008172 FtsX-like permease family; Region: FtsX; pfam02687 561231008173 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 561231008174 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561231008175 Walker A/P-loop; other site 561231008176 ATP binding site [chemical binding]; other site 561231008177 Q-loop/lid; other site 561231008178 ABC transporter signature motif; other site 561231008179 Walker B; other site 561231008180 D-loop; other site 561231008181 H-loop/switch region; other site 561231008182 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 561231008183 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561231008184 FtsX-like permease family; Region: FtsX; pfam02687 561231008185 transcription-repair coupling factor; Provisional; Region: PRK10689 561231008186 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 561231008187 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 561231008188 ATP binding site [chemical binding]; other site 561231008189 putative Mg++ binding site [ion binding]; other site 561231008190 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 561231008191 nucleotide binding region [chemical binding]; other site 561231008192 ATP-binding site [chemical binding]; other site 561231008193 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 561231008194 putative chaperone; Provisional; Region: PRK11678 561231008195 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 561231008196 nucleotide binding site [chemical binding]; other site 561231008197 putative NEF/HSP70 interaction site [polypeptide binding]; other site 561231008198 SBD interface [polypeptide binding]; other site 561231008199 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561231008200 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231008201 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 561231008202 putative substrate translocation pore; other site 561231008203 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561231008204 putative arabinose transporter; Provisional; Region: PRK03545 561231008205 hypothetical protein; Provisional; Region: PRK11280 561231008206 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 561231008207 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231008208 hypothetical protein; Provisional; Region: PRK04940 561231008209 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 561231008210 beta-hexosaminidase; Provisional; Region: PRK05337 561231008211 thiamine kinase; Region: ycfN_thiK; TIGR02721 561231008212 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 561231008213 active site 561231008214 substrate binding site [chemical binding]; other site 561231008215 ATP binding site [chemical binding]; other site 561231008216 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 561231008217 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 561231008218 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 561231008219 putative dimer interface [polypeptide binding]; other site 561231008220 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 561231008221 nucleotide binding site/active site [active] 561231008222 HIT family signature motif; other site 561231008223 catalytic residue [active] 561231008224 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 561231008225 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561231008226 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561231008227 active site turn [active] 561231008228 phosphorylation site [posttranslational modification] 561231008229 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 561231008230 active site 561231008231 DNA polymerase III subunit delta'; Validated; Region: PRK07993 561231008232 DNA polymerase III subunit delta'; Validated; Region: PRK08485 561231008233 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 561231008234 thymidylate kinase; Validated; Region: tmk; PRK00698 561231008235 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 561231008236 TMP-binding site; other site 561231008237 ATP-binding site [chemical binding]; other site 561231008238 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 561231008239 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 561231008240 dimerization interface [polypeptide binding]; other site 561231008241 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 561231008242 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 561231008243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231008244 catalytic residue [active] 561231008245 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 561231008246 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 561231008247 intersubunit interface [polypeptide binding]; other site 561231008248 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 561231008249 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 561231008250 dimer interface [polypeptide binding]; other site 561231008251 active site 561231008252 acyl carrier protein; Provisional; Region: acpP; PRK00982 561231008253 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 561231008254 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 561231008255 NAD(P) binding site [chemical binding]; other site 561231008256 homotetramer interface [polypeptide binding]; other site 561231008257 homodimer interface [polypeptide binding]; other site 561231008258 active site 561231008259 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 561231008260 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 561231008261 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 561231008262 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 561231008263 dimer interface [polypeptide binding]; other site 561231008264 active site 561231008265 CoA binding pocket [chemical binding]; other site 561231008266 putative phosphate acyltransferase; Provisional; Region: PRK05331 561231008267 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 561231008268 hypothetical protein; Provisional; Region: PRK11193 561231008269 Maf-like protein; Region: Maf; pfam02545 561231008270 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 561231008271 active site 561231008272 dimer interface [polypeptide binding]; other site 561231008273 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 561231008274 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 561231008275 RNA binding surface [nucleotide binding]; other site 561231008276 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 561231008277 active site 561231008278 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 561231008279 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 561231008280 homodimer interface [polypeptide binding]; other site 561231008281 oligonucleotide binding site [chemical binding]; other site 561231008282 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 561231008283 Uncharacterized conserved protein [Function unknown]; Region: COG1359 561231008284 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 561231008285 active site 561231008286 substrate binding pocket [chemical binding]; other site 561231008287 dimer interface [polypeptide binding]; other site 561231008288 DNA damage-inducible protein I; Provisional; Region: PRK10597 561231008289 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 561231008290 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 561231008291 hypothetical protein; Provisional; Region: PRK03757 561231008292 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 561231008293 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 561231008294 active site residue [active] 561231008295 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561231008296 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 561231008297 active site 561231008298 FMN binding site [chemical binding]; other site 561231008299 substrate binding site [chemical binding]; other site 561231008300 homotetramer interface [polypeptide binding]; other site 561231008301 catalytic residue [active] 561231008302 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 561231008303 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 561231008304 putative acyl-acceptor binding pocket; other site 561231008305 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 561231008306 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 561231008307 Ligand binding site; other site 561231008308 DXD motif; other site 561231008309 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 561231008310 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 561231008311 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 561231008312 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 561231008313 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 561231008314 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 561231008315 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231008316 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 561231008317 dimerization interface [polypeptide binding]; other site 561231008318 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231008319 dimer interface [polypeptide binding]; other site 561231008320 putative CheW interface [polypeptide binding]; other site 561231008321 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 561231008322 Uncharacterized conserved protein [Function unknown]; Region: COG1683 561231008323 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 561231008324 Ligand Binding Site [chemical binding]; other site 561231008325 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231008326 Coenzyme A binding pocket [chemical binding]; other site 561231008327 Isochorismatase family; Region: Isochorismatase; pfam00857 561231008328 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; cl00220 561231008329 catalytic triad [active] 561231008330 conserved cis-peptide bond; other site 561231008331 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 561231008332 nudix motif; other site 561231008333 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 561231008334 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 561231008335 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 561231008336 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 561231008337 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 561231008338 Transposase; Region: HTH_Tnp_1; pfam01527 561231008339 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 561231008340 YccA-like proteins; Region: YccA_like; cd10433 561231008341 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 561231008342 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 561231008343 acylphosphatase; Provisional; Region: PRK14426 561231008344 heat shock protein HspQ; Provisional; Region: PRK14129 561231008345 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 561231008346 hypothetical protein; Provisional; Region: PRK03641 561231008347 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 561231008348 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 561231008349 active site 561231008350 dimer interfaces [polypeptide binding]; other site 561231008351 catalytic residues [active] 561231008352 DNA helicase IV; Provisional; Region: helD; PRK11054 561231008353 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 561231008354 Part of AAA domain; Region: AAA_19; pfam13245 561231008355 Family description; Region: UvrD_C_2; pfam13538 561231008356 Predicted membrane protein [Function unknown]; Region: COG3304 561231008357 Domain of unknown function (DUF307); Region: DUF307; pfam03733 561231008358 Domain of unknown function (DUF307); Region: DUF307; pfam03733 561231008359 TIGR01666 family membrane protein; Region: YCCS 561231008360 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 561231008361 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 561231008362 TfoX N-terminal domain; Region: TfoX_N; pfam04993 561231008363 TfoX C-terminal domain; Region: TfoX_C; pfam04994 561231008364 SOS cell division inhibitor; Provisional; Region: PRK10595 561231008365 outer membrane protein A; Reviewed; Region: PRK10808 561231008366 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 561231008367 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 561231008368 ligand binding site [chemical binding]; other site 561231008369 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 561231008370 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 561231008371 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 561231008372 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 561231008373 active site 1 [active] 561231008374 dimer interface [polypeptide binding]; other site 561231008375 active site 2 [active] 561231008376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 561231008377 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 561231008378 putative metal binding site [ion binding]; other site 561231008379 hypothetical protein; Provisional; Region: PRK09273 561231008380 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 561231008381 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 561231008382 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 561231008383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 561231008384 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 561231008385 DNA-binding site [nucleotide binding]; DNA binding site 561231008386 RNA-binding motif; other site 561231008387 SAM dependent carboxyl methyltransferase; Region: Methyltransf_7; cl04109 561231008388 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 561231008389 active site residue [active] 561231008390 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 561231008391 MATE family multidrug exporter; Provisional; Region: PRK10189 561231008392 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 561231008393 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 561231008394 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 561231008395 putative substrate translocation pore; other site 561231008396 outer membrane protein X; Provisional; Region: ompX; PRK09408 561231008397 threonine and homoserine efflux system; Provisional; Region: PRK10532 561231008398 EamA-like transporter family; Region: EamA; pfam00892 561231008399 topology modulation protein; Reviewed; Region: PRK08118 561231008400 AAA domain; Region: AAA_17; pfam13207 561231008401 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 561231008402 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 561231008403 dimerization interface [polypeptide binding]; other site 561231008404 DPS ferroxidase diiron center [ion binding]; other site 561231008405 ion pore; other site 561231008406 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 561231008407 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231008408 substrate binding pocket [chemical binding]; other site 561231008409 membrane-bound complex binding site; other site 561231008410 hinge residues; other site 561231008411 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231008412 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 561231008413 dimer interface [polypeptide binding]; other site 561231008414 conserved gate region; other site 561231008415 putative PBP binding loops; other site 561231008416 ABC-ATPase subunit interface; other site 561231008417 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 561231008418 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561231008419 Walker A/P-loop; other site 561231008420 ATP binding site [chemical binding]; other site 561231008421 Q-loop/lid; other site 561231008422 ABC transporter signature motif; other site 561231008423 Walker B; other site 561231008424 D-loop; other site 561231008425 H-loop/switch region; other site 561231008426 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 561231008427 Peptidase M3-like family, a zincin metallopeptidase, includes M3 and M32 families; Region: M3_like; cd06258 561231008428 active site 561231008429 Zn binding site [ion binding]; other site 561231008430 glycosyl transferase family protein; Provisional; Region: PRK08136 561231008431 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 561231008432 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 561231008433 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 561231008434 Baseplate J-like protein; Region: Baseplate_J; cl01294 561231008435 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 561231008436 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 561231008437 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 561231008438 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 561231008439 Phage Tail Protein X; Region: Phage_tail_X; cl02088 561231008440 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 561231008441 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 561231008442 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 561231008443 Phage tail tube protein FII; Region: Phage_tube; cl01390 561231008444 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 561231008445 Gp37 protein; Region: Gp37; pfam09646 561231008446 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 561231008447 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561231008448 catalytic residue [active] 561231008449 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 561231008450 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 561231008451 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 561231008452 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231008453 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231008454 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 561231008455 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 561231008456 Walker A/P-loop; other site 561231008457 ATP binding site [chemical binding]; other site 561231008458 Q-loop/lid; other site 561231008459 ABC transporter signature motif; other site 561231008460 Walker B; other site 561231008461 D-loop; other site 561231008462 H-loop/switch region; other site 561231008463 Protease inhibitor Inh; Region: Inh; pfam02974 561231008464 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 561231008465 active site 561231008466 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 561231008467 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 561231008468 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 561231008469 DEAD_2; Region: DEAD_2; pfam06733 561231008470 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 561231008471 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561231008472 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231008473 LysE type translocator; Region: LysE; cl00565 561231008474 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 561231008475 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 561231008476 active site 561231008477 metal binding site [ion binding]; metal-binding site 561231008478 nudix motif; other site 561231008479 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 561231008480 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 561231008481 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 561231008482 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 561231008483 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 561231008484 inhibitor-cofactor binding pocket; inhibition site 561231008485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231008486 catalytic residue [active] 561231008487 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 561231008488 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561231008489 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561231008490 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231008491 Walker A/P-loop; other site 561231008492 ATP binding site [chemical binding]; other site 561231008493 Q-loop/lid; other site 561231008494 ABC transporter signature motif; other site 561231008495 Walker B; other site 561231008496 D-loop; other site 561231008497 H-loop/switch region; other site 561231008498 TOBE domain; Region: TOBE_2; pfam08402 561231008499 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 561231008500 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 561231008501 putative PBP binding loops; other site 561231008502 dimer interface [polypeptide binding]; other site 561231008503 ABC-ATPase subunit interface; other site 561231008504 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 561231008505 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561231008506 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 561231008507 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561231008508 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 561231008509 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561231008510 putative C-terminal domain interface [polypeptide binding]; other site 561231008511 putative GSH binding site (G-site) [chemical binding]; other site 561231008512 putative dimer interface [polypeptide binding]; other site 561231008513 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 561231008514 putative substrate binding pocket (H-site) [chemical binding]; other site 561231008515 putative N-terminal domain interface [polypeptide binding]; other site 561231008516 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 561231008517 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 561231008518 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 561231008519 FMN-binding domain; Region: FMN_bind; cl01081 561231008520 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 561231008521 putative active site [active] 561231008522 putative metal binding residues [ion binding]; other site 561231008523 signature motif; other site 561231008524 putative triphosphate binding site [ion binding]; other site 561231008525 dimer interface [polypeptide binding]; other site 561231008526 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 561231008527 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 561231008528 S-methylmethionine transporter; Provisional; Region: PRK11387 561231008529 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 561231008530 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 561231008531 FMN binding site [chemical binding]; other site 561231008532 active site 561231008533 catalytic residues [active] 561231008534 substrate binding site [chemical binding]; other site 561231008535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 561231008536 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561231008537 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 561231008538 peptide binding site [polypeptide binding]; other site 561231008539 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 561231008540 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 561231008541 metal binding site [ion binding]; metal-binding site 561231008542 dimer interface [polypeptide binding]; other site 561231008543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231008544 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231008545 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231008546 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 561231008547 EamA-like transporter family; Region: EamA; pfam00892 561231008548 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 561231008549 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 561231008550 ATP binding site [chemical binding]; other site 561231008551 Mg++ binding site [ion binding]; other site 561231008552 motif III; other site 561231008553 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 561231008554 nucleotide binding region [chemical binding]; other site 561231008555 ATP-binding site [chemical binding]; other site 561231008556 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 561231008557 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 561231008558 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561231008559 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561231008560 Walker A/P-loop; other site 561231008561 ATP binding site [chemical binding]; other site 561231008562 Q-loop/lid; other site 561231008563 ABC transporter signature motif; other site 561231008564 Walker B; other site 561231008565 D-loop; other site 561231008566 H-loop/switch region; other site 561231008567 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 561231008568 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 561231008569 ABC-ATPase subunit interface; other site 561231008570 dimer interface [polypeptide binding]; other site 561231008571 putative PBP binding regions; other site 561231008572 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561231008573 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 561231008574 ABC-ATPase subunit interface; other site 561231008575 dimer interface [polypeptide binding]; other site 561231008576 putative PBP binding regions; other site 561231008577 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 561231008578 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 561231008579 siderophore binding site; other site 561231008580 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 561231008581 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 561231008582 N-terminal plug; other site 561231008583 ligand-binding site [chemical binding]; other site 561231008584 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 561231008585 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231008586 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231008587 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 561231008588 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 561231008589 Walker A/P-loop; other site 561231008590 ATP binding site [chemical binding]; other site 561231008591 Q-loop/lid; other site 561231008592 ABC transporter signature motif; other site 561231008593 Walker B; other site 561231008594 D-loop; other site 561231008595 H-loop/switch region; other site 561231008596 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 561231008597 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 561231008598 Walker A/P-loop; other site 561231008599 ATP binding site [chemical binding]; other site 561231008600 Q-loop/lid; other site 561231008601 ABC transporter signature motif; other site 561231008602 Walker B; other site 561231008603 D-loop; other site 561231008604 H-loop/switch region; other site 561231008605 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 561231008606 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 561231008607 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 561231008608 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 561231008609 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 561231008610 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 561231008611 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 561231008612 MoaE homodimer interface [polypeptide binding]; other site 561231008613 MoaD interaction [polypeptide binding]; other site 561231008614 active site residues [active] 561231008615 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 561231008616 MoaE interaction surface [polypeptide binding]; other site 561231008617 MoeB interaction surface [polypeptide binding]; other site 561231008618 thiocarboxylated glycine; other site 561231008619 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 561231008620 trimer interface [polypeptide binding]; other site 561231008621 dimer interface [polypeptide binding]; other site 561231008622 putative active site [active] 561231008623 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 561231008624 MPT binding site; other site 561231008625 trimer interface [polypeptide binding]; other site 561231008626 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 561231008627 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 561231008628 FeS/SAM binding site; other site 561231008629 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 561231008630 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 561231008631 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 561231008632 phosphate binding site [ion binding]; other site 561231008633 putative substrate binding pocket [chemical binding]; other site 561231008634 dimer interface [polypeptide binding]; other site 561231008635 phosphodiesterase; Provisional; Region: PRK12704 561231008636 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 561231008637 active site 561231008638 excinuclease ABC subunit B; Provisional; Region: PRK05298 561231008639 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 561231008640 ATP binding site [chemical binding]; other site 561231008641 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 561231008642 nucleotide binding region [chemical binding]; other site 561231008643 ATP-binding site [chemical binding]; other site 561231008644 Ultra-violet resistance protein B; Region: UvrB; pfam12344 561231008645 UvrB/uvrC motif; Region: UVR; pfam02151 561231008646 AAA domain; Region: AAA_26; pfam13500 561231008647 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 561231008648 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 561231008649 ADP binding site [chemical binding]; other site 561231008650 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 561231008651 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 561231008652 S-adenosylmethionine binding site [chemical binding]; other site 561231008653 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 561231008654 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 561231008655 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561231008656 catalytic residue [active] 561231008657 biotin synthase; Provisional; Region: PRK15108 561231008658 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 561231008659 FeS/SAM binding site; other site 561231008660 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 561231008661 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 561231008662 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 561231008663 inhibitor-cofactor binding pocket; inhibition site 561231008664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231008665 catalytic residue [active] 561231008666 Glycosyl hydrolase family 12; Region: Glyco_hydro_12; pfam01670 561231008667 hypothetical protein; Provisional; Region: PRK01821 561231008668 hypothetical protein; Provisional; Region: PRK10711 561231008669 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 561231008670 cytidine deaminase; Provisional; Region: PRK09027 561231008671 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 561231008672 active site 561231008673 catalytic motif [active] 561231008674 Zn binding site [ion binding]; other site 561231008675 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 561231008676 active site 561231008677 catalytic motif [active] 561231008678 Zn binding site [ion binding]; other site 561231008679 malate dehydrogenase; Provisional; Region: PRK13529 561231008680 Malic enzyme, N-terminal domain; Region: malic; pfam00390 561231008681 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 561231008682 NAD(P) binding site [chemical binding]; other site 561231008683 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 561231008684 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 561231008685 dimer interface [polypeptide binding]; other site 561231008686 conserved gate region; other site 561231008687 putative PBP binding loops; other site 561231008688 ABC-ATPase subunit interface; other site 561231008689 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 561231008690 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 561231008691 dimer interface [polypeptide binding]; other site 561231008692 conserved gate region; other site 561231008693 putative PBP binding loops; other site 561231008694 ABC-ATPase subunit interface; other site 561231008695 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 561231008696 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 561231008697 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 561231008698 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231008699 Walker A/P-loop; other site 561231008700 ATP binding site [chemical binding]; other site 561231008701 Q-loop/lid; other site 561231008702 ABC transporter signature motif; other site 561231008703 Walker B; other site 561231008704 D-loop; other site 561231008705 H-loop/switch region; other site 561231008706 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231008707 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231008708 Walker A/P-loop; other site 561231008709 ATP binding site [chemical binding]; other site 561231008710 Q-loop/lid; other site 561231008711 ABC transporter signature motif; other site 561231008712 Walker B; other site 561231008713 D-loop; other site 561231008714 H-loop/switch region; other site 561231008715 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231008716 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 561231008717 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 561231008718 dimer interface [polypeptide binding]; other site 561231008719 putative functional site; other site 561231008720 putative MPT binding site; other site 561231008721 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 561231008722 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 561231008723 ATP binding site [chemical binding]; other site 561231008724 substrate interface [chemical binding]; other site 561231008725 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 561231008726 dimer interface [polypeptide binding]; other site 561231008727 FMN binding site [chemical binding]; other site 561231008728 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231008729 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231008730 metal binding site [ion binding]; metal-binding site 561231008731 active site 561231008732 I-site; other site 561231008733 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 561231008734 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 561231008735 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 561231008736 N-terminal plug; other site 561231008737 ligand-binding site [chemical binding]; other site 561231008738 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 561231008739 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 561231008740 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 561231008741 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 561231008742 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561231008743 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 561231008744 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561231008745 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 561231008746 dimer interface [polypeptide binding]; other site 561231008747 conserved gate region; other site 561231008748 putative PBP binding loops; other site 561231008749 ABC-ATPase subunit interface; other site 561231008750 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 561231008751 dimer interface [polypeptide binding]; other site 561231008752 conserved gate region; other site 561231008753 putative PBP binding loops; other site 561231008754 ABC-ATPase subunit interface; other site 561231008755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231008756 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561231008757 Walker A/P-loop; other site 561231008758 ATP binding site [chemical binding]; other site 561231008759 Q-loop/lid; other site 561231008760 ABC transporter signature motif; other site 561231008761 Walker B; other site 561231008762 D-loop; other site 561231008763 H-loop/switch region; other site 561231008764 AAA domain; Region: AAA_33; pfam13671 561231008765 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 561231008766 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 561231008767 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561231008768 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 561231008769 substrate binding site [chemical binding]; other site 561231008770 ATP binding site [chemical binding]; other site 561231008771 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 561231008772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 561231008773 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561231008774 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561231008775 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561231008776 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231008777 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561231008778 TM-ABC transporter signature motif; other site 561231008779 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561231008780 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561231008781 Walker A/P-loop; other site 561231008782 ATP binding site [chemical binding]; other site 561231008783 Q-loop/lid; other site 561231008784 ABC transporter signature motif; other site 561231008785 Walker B; other site 561231008786 D-loop; other site 561231008787 H-loop/switch region; other site 561231008788 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561231008789 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 561231008790 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 561231008791 ligand binding site [chemical binding]; other site 561231008792 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561231008793 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561231008794 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561231008795 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 561231008796 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561231008797 PYR/PP interface [polypeptide binding]; other site 561231008798 dimer interface [polypeptide binding]; other site 561231008799 TPP binding site [chemical binding]; other site 561231008800 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561231008801 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 561231008802 TPP-binding site; other site 561231008803 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 561231008804 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 561231008805 tetrameric interface [polypeptide binding]; other site 561231008806 NAD binding site [chemical binding]; other site 561231008807 catalytic residues [active] 561231008808 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 561231008809 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 561231008810 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 561231008811 putative active site [active] 561231008812 Uncharacterized conserved protein [Function unknown]; Region: COG1359 561231008813 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561231008814 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 561231008815 MASE2 domain; Region: MASE2; pfam05230 561231008816 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231008817 metal binding site [ion binding]; metal-binding site 561231008818 active site 561231008819 I-site; other site 561231008820 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 561231008821 peptidase domain interface [polypeptide binding]; other site 561231008822 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 561231008823 active site 561231008824 catalytic triad [active] 561231008825 calcium binding site [ion binding]; other site 561231008826 chorismate mutase; Provisional; Region: PRK08055 561231008827 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 561231008828 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 561231008829 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 561231008830 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 561231008831 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 561231008832 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 561231008833 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 561231008834 active site 561231008835 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 561231008836 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 561231008837 substrate binding site; other site 561231008838 tetramer interface; other site 561231008839 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 561231008840 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 561231008841 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 561231008842 NADP binding site [chemical binding]; other site 561231008843 active site 561231008844 putative substrate binding site [chemical binding]; other site 561231008845 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 561231008846 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 561231008847 UDP-galactopyranose mutase; Region: GLF; pfam03275 561231008848 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 561231008849 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 561231008850 active site 561231008851 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 561231008852 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 561231008853 putative ADP-binding pocket [chemical binding]; other site 561231008854 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 561231008855 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 561231008856 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 561231008857 pseudaminic acid synthase; Region: PseI; TIGR03586 561231008858 NeuB family; Region: NeuB; pfam03102 561231008859 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 561231008860 NeuB binding interface [polypeptide binding]; other site 561231008861 putative substrate binding site [chemical binding]; other site 561231008862 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 561231008863 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 561231008864 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 561231008865 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 561231008866 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 561231008867 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 561231008868 ligand binding site; other site 561231008869 tetramer interface; other site 561231008870 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 561231008871 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 561231008872 inhibitor-cofactor binding pocket; inhibition site 561231008873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231008874 catalytic residue [active] 561231008875 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 561231008876 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 561231008877 NAD(P) binding site [chemical binding]; other site 561231008878 homodimer interface [polypeptide binding]; other site 561231008879 substrate binding site [chemical binding]; other site 561231008880 active site 561231008881 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 561231008882 Bacterial sugar transferase; Region: Bac_transf; pfam02397 561231008883 tyrosine kinase; Provisional; Region: PRK11519 561231008884 Chain length determinant protein; Region: Wzz; pfam02706 561231008885 Chain length determinant protein; Region: Wzz; cl15801 561231008886 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 561231008887 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 561231008888 Nucleotide binding site [chemical binding]; other site 561231008889 DTAP/Switch II; other site 561231008890 Switch I; other site 561231008891 Low molecular weight phosphatase family; Region: LMWPc; cd00115 561231008892 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 561231008893 active site 561231008894 polysaccharide export protein Wza; Provisional; Region: PRK15078 561231008895 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 561231008896 SLBB domain; Region: SLBB; pfam10531 561231008897 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 561231008898 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 561231008899 Mg++ binding site [ion binding]; other site 561231008900 putative catalytic motif [active] 561231008901 substrate binding site [chemical binding]; other site 561231008902 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 561231008903 FOG: CBS domain [General function prediction only]; Region: COG0517 561231008904 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 561231008905 Transporter associated domain; Region: CorC_HlyC; smart01091 561231008906 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 561231008907 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 561231008908 putative assembly protein; Provisional; Region: PRK10833 561231008909 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 561231008910 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 561231008911 trimer interface [polypeptide binding]; other site 561231008912 active site 561231008913 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 561231008914 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 561231008915 Sugar specificity; other site 561231008916 Pyrimidine base specificity; other site 561231008917 ATP-binding site [chemical binding]; other site 561231008918 antiporter inner membrane protein; Provisional; Region: PRK11670 561231008919 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 561231008920 Walker A motif; other site 561231008921 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 561231008922 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 561231008923 active site 561231008924 HIGH motif; other site 561231008925 KMSKS motif; other site 561231008926 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 561231008927 tRNA binding surface [nucleotide binding]; other site 561231008928 anticodon binding site; other site 561231008929 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 561231008930 dimer interface [polypeptide binding]; other site 561231008931 putative tRNA-binding site [nucleotide binding]; other site 561231008932 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 561231008933 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 561231008934 [4Fe-4S] binding site [ion binding]; other site 561231008935 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 561231008936 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 561231008937 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 561231008938 molybdopterin cofactor binding site; other site 561231008939 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 561231008940 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 561231008941 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 561231008942 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 561231008943 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 561231008944 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 561231008945 putative ligand binding site [chemical binding]; other site 561231008946 Uncharacterized conserved protein [Function unknown]; Region: COG5276 561231008947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 561231008948 6-phosphogluconolactonase; Provisional; Region: PRK11028 561231008949 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 561231008950 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 561231008951 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 561231008952 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 561231008953 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 561231008954 active site 561231008955 motif I; other site 561231008956 motif II; other site 561231008957 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561231008958 glucokinase; Provisional; Region: glk; PRK00292 561231008959 glucokinase, proteobacterial type; Region: glk; TIGR00749 561231008960 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 561231008961 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 561231008962 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 561231008963 Metal-binding active site; metal-binding site 561231008964 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 561231008965 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561231008966 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561231008967 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561231008968 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561231008969 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231008970 DNA binding site [nucleotide binding] 561231008971 domain linker motif; other site 561231008972 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 561231008973 dimerization interface [polypeptide binding]; other site 561231008974 ligand binding site [chemical binding]; other site 561231008975 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 561231008976 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 561231008977 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231008978 Walker A/P-loop; other site 561231008979 ATP binding site [chemical binding]; other site 561231008980 Q-loop/lid; other site 561231008981 ABC transporter signature motif; other site 561231008982 Walker B; other site 561231008983 D-loop; other site 561231008984 H-loop/switch region; other site 561231008985 molybdenum-pterin binding domain; Region: Mop; TIGR00638 561231008986 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561231008987 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 561231008988 dimer interface [polypeptide binding]; other site 561231008989 conserved gate region; other site 561231008990 putative PBP binding loops; other site 561231008991 ABC-ATPase subunit interface; other site 561231008992 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 561231008993 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561231008994 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 561231008995 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 561231008996 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 561231008997 molybdenum-pterin binding domain; Region: Mop; TIGR00638 561231008998 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 561231008999 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 561231009000 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231009001 Walker A/P-loop; other site 561231009002 ATP binding site [chemical binding]; other site 561231009003 Q-loop/lid; other site 561231009004 ABC transporter signature motif; other site 561231009005 Walker B; other site 561231009006 D-loop; other site 561231009007 H-loop/switch region; other site 561231009008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231009009 Walker A/P-loop; other site 561231009010 ATP binding site [chemical binding]; other site 561231009011 Q-loop/lid; other site 561231009012 ABC transporter signature motif; other site 561231009013 Walker B; other site 561231009014 D-loop; other site 561231009015 H-loop/switch region; other site 561231009016 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 561231009017 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 561231009018 NAD binding site [chemical binding]; other site 561231009019 homodimer interface [polypeptide binding]; other site 561231009020 active site 561231009021 substrate binding site [chemical binding]; other site 561231009022 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 561231009023 active site 561231009024 catalytic residues [active] 561231009025 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 561231009026 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 561231009027 Outer membrane efflux protein; Region: OEP; pfam02321 561231009028 Outer membrane efflux protein; Region: OEP; pfam02321 561231009029 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 561231009030 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231009031 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 561231009032 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 561231009033 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 561231009034 catalytic core [active] 561231009035 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 561231009036 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561231009037 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 561231009038 Predicted membrane protein [Function unknown]; Region: COG2259 561231009039 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 561231009040 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561231009041 zinc transporter ZitB; Provisional; Region: PRK03557 561231009042 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 561231009043 quinolinate synthetase; Provisional; Region: PRK09375 561231009044 hypothetical protein; Provisional; Region: PRK10039 561231009045 Protein of unknown function (DUF554); Region: DUF554; pfam04474 561231009046 tol-pal system protein YbgF; Provisional; Region: PRK10803 561231009047 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 561231009048 binding surface 561231009049 TPR motif; other site 561231009050 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 561231009051 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 561231009052 ligand binding site [chemical binding]; other site 561231009053 translocation protein TolB; Provisional; Region: tolB; PRK03629 561231009054 TolB amino-terminal domain; Region: TolB_N; pfam04052 561231009055 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 561231009056 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 561231009057 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 561231009058 TolA C-terminal; Region: TolA; pfam06519 561231009059 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 561231009060 colicin uptake protein TolR; Provisional; Region: PRK11024 561231009061 colicin uptake protein TolQ; Provisional; Region: PRK10801 561231009062 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 561231009063 active site 561231009064 hypothetical protein; Provisional; Region: PRK10588 561231009065 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 561231009066 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 561231009067 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 561231009068 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 561231009069 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 561231009070 TPR repeat; Region: TPR_11; pfam13414 561231009071 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 561231009072 TPR motif; other site 561231009073 binding surface 561231009074 Tetratricopeptide repeat; Region: TPR_12; pfam13424 561231009075 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 561231009076 CoA binding domain; Region: CoA_binding; smart00881 561231009077 CoA-ligase; Region: Ligase_CoA; pfam00549 561231009078 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 561231009079 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 561231009080 CoA-ligase; Region: Ligase_CoA; pfam00549 561231009081 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 561231009082 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 561231009083 E3 interaction surface; other site 561231009084 lipoyl attachment site [posttranslational modification]; other site 561231009085 e3 binding domain; Region: E3_binding; pfam02817 561231009086 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 561231009087 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 561231009088 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 561231009089 TPP-binding site [chemical binding]; other site 561231009090 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 561231009091 dimer interface [polypeptide binding]; other site 561231009092 PYR/PP interface [polypeptide binding]; other site 561231009093 TPP binding site [chemical binding]; other site 561231009094 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 561231009095 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 561231009096 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 561231009097 L-aspartate oxidase; Provisional; Region: PRK06175 561231009098 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 561231009099 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 561231009100 SdhC subunit interface [polypeptide binding]; other site 561231009101 proximal heme binding site [chemical binding]; other site 561231009102 cardiolipin binding site; other site 561231009103 Iron-sulfur protein interface; other site 561231009104 proximal quinone binding site [chemical binding]; other site 561231009105 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 561231009106 Iron-sulfur protein interface; other site 561231009107 proximal quinone binding site [chemical binding]; other site 561231009108 SdhD (CybS) interface [polypeptide binding]; other site 561231009109 proximal heme binding site [chemical binding]; other site 561231009110 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 561231009111 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 561231009112 dimer interface [polypeptide binding]; other site 561231009113 active site 561231009114 citrylCoA binding site [chemical binding]; other site 561231009115 NADH binding [chemical binding]; other site 561231009116 cationic pore residues; other site 561231009117 oxalacetate/citrate binding site [chemical binding]; other site 561231009118 coenzyme A binding site [chemical binding]; other site 561231009119 catalytic triad [active] 561231009120 endonuclease VIII; Provisional; Region: PRK10445 561231009121 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 561231009122 DNA binding site [nucleotide binding] 561231009123 catalytic residue [active] 561231009124 H2TH interface [polypeptide binding]; other site 561231009125 putative catalytic residues [active] 561231009126 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 561231009127 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 561231009128 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 561231009129 putative substrate binding pocket [chemical binding]; other site 561231009130 AC domain interface; other site 561231009131 catalytic triad [active] 561231009132 AB domain interface; other site 561231009133 interchain disulfide; other site 561231009134 LamB/YcsF family protein; Provisional; Region: PRK05406 561231009135 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 561231009136 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 561231009137 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 561231009138 Uncharacterized conserved protein [Function unknown]; Region: COG0327 561231009139 metal-binding protein; Provisional; Region: PRK10799 561231009140 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 561231009141 DNA photolyase; Region: DNA_photolyase; pfam00875 561231009142 Protein of unknown function (DUF523); Region: DUF523; pfam04463 561231009143 Uncharacterized conserved protein [Function unknown]; Region: COG3272 561231009144 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 561231009145 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 561231009146 HEAT repeats; Region: HEAT_2; pfam13646 561231009147 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 561231009148 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 561231009149 active site 561231009150 dimerization interface [polypeptide binding]; other site 561231009151 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 561231009152 DNA binding site [nucleotide binding] 561231009153 Predicted membrane protein [Function unknown]; Region: COG2510 561231009154 phosphoglucomutase; Validated; Region: PRK07564 561231009155 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 561231009156 active site 561231009157 substrate binding site [chemical binding]; other site 561231009158 metal binding site [ion binding]; metal-binding site 561231009159 replication initiation regulator SeqA; Provisional; Region: PRK11187 561231009160 acyl-CoA esterase; Provisional; Region: PRK10673 561231009161 PGAP1-like protein; Region: PGAP1; pfam07819 561231009162 LexA regulated protein; Provisional; Region: PRK11675 561231009163 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 561231009164 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231009165 dimer interface [polypeptide binding]; other site 561231009166 putative CheW interface [polypeptide binding]; other site 561231009167 flavodoxin FldA; Validated; Region: PRK09267 561231009168 ferric uptake regulator; Provisional; Region: fur; PRK09462 561231009169 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 561231009170 metal binding site 2 [ion binding]; metal-binding site 561231009171 putative DNA binding helix; other site 561231009172 metal binding site 1 [ion binding]; metal-binding site 561231009173 dimer interface [polypeptide binding]; other site 561231009174 structural Zn2+ binding site [ion binding]; other site 561231009175 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 561231009176 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 561231009177 active site 561231009178 HIGH motif; other site 561231009179 nucleotide binding site [chemical binding]; other site 561231009180 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 561231009181 KMSKS motif; other site 561231009182 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 561231009183 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561231009184 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 561231009185 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561231009186 active site turn [active] 561231009187 phosphorylation site [posttranslational modification] 561231009188 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 561231009189 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 561231009190 active site 561231009191 trimer interface [polypeptide binding]; other site 561231009192 allosteric site; other site 561231009193 active site lid [active] 561231009194 hexamer (dimer of trimers) interface [polypeptide binding]; other site 561231009195 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 561231009196 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 561231009197 active site 561231009198 dimer interface [polypeptide binding]; other site 561231009199 MarR family; Region: MarR; pfam01047 561231009200 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 561231009201 ROK family; Region: ROK; pfam00480 561231009202 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 561231009203 asparagine synthetase B; Provisional; Region: asnB; PRK09431 561231009204 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 561231009205 active site 561231009206 dimer interface [polypeptide binding]; other site 561231009207 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 561231009208 Ligand Binding Site [chemical binding]; other site 561231009209 Molecular Tunnel; other site 561231009210 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 561231009211 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 561231009212 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 561231009213 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 561231009214 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 561231009215 FeS/SAM binding site; other site 561231009216 TRAM domain; Region: TRAM; pfam01938 561231009217 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 561231009218 PhoH-like protein; Region: PhoH; pfam02562 561231009219 metal-binding heat shock protein; Provisional; Region: PRK00016 561231009220 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 561231009221 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 561231009222 Transporter associated domain; Region: CorC_HlyC; smart01091 561231009223 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 561231009224 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 561231009225 putative active site [active] 561231009226 catalytic triad [active] 561231009227 putative dimer interface [polypeptide binding]; other site 561231009228 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 561231009229 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231009230 substrate binding pocket [chemical binding]; other site 561231009231 membrane-bound complex binding site; other site 561231009232 hinge residues; other site 561231009233 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231009234 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 561231009235 dimer interface [polypeptide binding]; other site 561231009236 conserved gate region; other site 561231009237 putative PBP binding loops; other site 561231009238 ABC-ATPase subunit interface; other site 561231009239 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231009240 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 561231009241 dimer interface [polypeptide binding]; other site 561231009242 conserved gate region; other site 561231009243 putative PBP binding loops; other site 561231009244 ABC-ATPase subunit interface; other site 561231009245 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561231009246 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561231009247 Walker A/P-loop; other site 561231009248 ATP binding site [chemical binding]; other site 561231009249 Q-loop/lid; other site 561231009250 ABC transporter signature motif; other site 561231009251 Walker B; other site 561231009252 D-loop; other site 561231009253 H-loop/switch region; other site 561231009254 hypothetical protein; Provisional; Region: PRK11032 561231009255 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 561231009256 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 561231009257 HIGH motif; other site 561231009258 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 561231009259 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 561231009260 active site 561231009261 KMSKS motif; other site 561231009262 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 561231009263 tRNA binding surface [nucleotide binding]; other site 561231009264 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 561231009265 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 561231009266 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 561231009267 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 561231009268 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 561231009269 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 561231009270 active site 561231009271 (T/H)XGH motif; other site 561231009272 ribosome-associated protein; Provisional; Region: PRK11538 561231009273 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 561231009274 penicillin-binding protein 2; Provisional; Region: PRK10795 561231009275 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 561231009276 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 561231009277 cell wall shape-determining protein; Provisional; Region: PRK10794 561231009278 rare lipoprotein A; Provisional; Region: PRK10672 561231009279 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 561231009280 Sporulation related domain; Region: SPOR; pfam05036 561231009281 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 561231009282 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 561231009283 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 561231009284 hypothetical protein; Provisional; Region: PRK04998 561231009285 lipoate-protein ligase B; Provisional; Region: PRK14342 561231009286 lipoyl synthase; Provisional; Region: PRK05481 561231009287 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 561231009288 FeS/SAM binding site; other site 561231009289 twin arginine translocase protein A; Validated; Region: tatE; PRK01614 561231009290 chromosome condensation membrane protein; Provisional; Region: PRK14196 561231009291 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 561231009292 DNA-binding site [nucleotide binding]; DNA binding site 561231009293 RNA-binding motif; other site 561231009294 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 561231009295 aspartate racemase; Region: asp_race; TIGR00035 561231009296 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 561231009297 ArsC family; Region: ArsC; pfam03960 561231009298 putative catalytic residues [active] 561231009299 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 561231009300 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 561231009301 metal binding site [ion binding]; metal-binding site 561231009302 dimer interface [polypeptide binding]; other site 561231009303 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 561231009304 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 561231009305 Uncharacterized protein family (UPF0370); Region: UPF0370; pfam13980 561231009306 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231009307 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231009308 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 561231009309 putative dimerization interface [polypeptide binding]; other site 561231009310 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 561231009311 Citrate transporter; Region: CitMHS; pfam03600 561231009312 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 561231009313 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 561231009314 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 561231009315 putative acyltransferase; Provisional; Region: PRK05790 561231009316 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 561231009317 dimer interface [polypeptide binding]; other site 561231009318 active site 561231009319 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 561231009320 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561231009321 dimer interface [polypeptide binding]; other site 561231009322 ligand binding site [chemical binding]; other site 561231009323 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 561231009324 dimerization interface [polypeptide binding]; other site 561231009325 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231009326 dimer interface [polypeptide binding]; other site 561231009327 putative CheW interface [polypeptide binding]; other site 561231009328 putative hydrolase; Provisional; Region: PRK11460 561231009329 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 561231009330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 561231009331 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 561231009332 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 561231009333 Helicase; Region: Helicase_RecD; pfam05127 561231009334 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231009335 Coenzyme A binding pocket [chemical binding]; other site 561231009336 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 561231009337 Predicted membrane protein [Function unknown]; Region: COG2707 561231009338 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 561231009339 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 561231009340 ATP binding site [chemical binding]; other site 561231009341 active site 561231009342 substrate binding site [chemical binding]; other site 561231009343 lipoprotein; Provisional; Region: PRK11679 561231009344 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 561231009345 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 561231009346 dihydrodipicolinate synthase; Region: dapA; TIGR00674 561231009347 dimer interface [polypeptide binding]; other site 561231009348 active site 561231009349 catalytic residue [active] 561231009350 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 561231009351 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 561231009352 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 561231009353 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 561231009354 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 561231009355 catalytic triad [active] 561231009356 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 561231009357 Peptidase family M48; Region: Peptidase_M48; pfam01435 561231009358 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 561231009359 ArsC family; Region: ArsC; pfam03960 561231009360 catalytic residues [active] 561231009361 DNA replication initiation factor; Provisional; Region: PRK08084 561231009362 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 561231009363 uracil transporter; Provisional; Region: PRK10720 561231009364 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561231009365 active site 561231009366 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 561231009367 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 561231009368 dimerization interface [polypeptide binding]; other site 561231009369 putative ATP binding site [chemical binding]; other site 561231009370 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 561231009371 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 561231009372 active site 561231009373 substrate binding site [chemical binding]; other site 561231009374 cosubstrate binding site; other site 561231009375 catalytic site [active] 561231009376 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 561231009377 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 561231009378 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 561231009379 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231009380 Coenzyme A binding pocket [chemical binding]; other site 561231009381 FtsX-like permease family; Region: FtsX; pfam02687 561231009382 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 561231009383 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561231009384 Walker A/P-loop; other site 561231009385 ATP binding site [chemical binding]; other site 561231009386 Q-loop/lid; other site 561231009387 ABC transporter signature motif; other site 561231009388 Walker B; other site 561231009389 D-loop; other site 561231009390 H-loop/switch region; other site 561231009391 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 561231009392 active site 561231009393 catalytic triad [active] 561231009394 oxyanion hole [active] 561231009395 switch loop; other site 561231009396 oxidoreductase; Provisional; Region: PRK08017 561231009397 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 561231009398 NADP binding site [chemical binding]; other site 561231009399 active site 561231009400 steroid binding site; other site 561231009401 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 561231009402 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 561231009403 hypothetical protein; Provisional; Region: PRK03673 561231009404 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 561231009405 putative MPT binding site; other site 561231009406 tyrosine transporter TyrP; Provisional; Region: PRK15132 561231009407 aromatic amino acid transport protein; Region: araaP; TIGR00837 561231009408 YfaZ precursor; Region: YfaZ; pfam07437 561231009409 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 561231009410 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 561231009411 acyl-activating enzyme (AAE) consensus motif; other site 561231009412 putative AMP binding site [chemical binding]; other site 561231009413 putative active site [active] 561231009414 putative CoA binding site [chemical binding]; other site 561231009415 O-succinylbenzoate synthase; Provisional; Region: PRK05105 561231009416 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 561231009417 active site 561231009418 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 561231009419 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 561231009420 substrate binding site [chemical binding]; other site 561231009421 oxyanion hole (OAH) forming residues; other site 561231009422 trimer interface [polypeptide binding]; other site 561231009423 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 561231009424 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 561231009425 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 561231009426 dimer interface [polypeptide binding]; other site 561231009427 tetramer interface [polypeptide binding]; other site 561231009428 PYR/PP interface [polypeptide binding]; other site 561231009429 TPP binding site [chemical binding]; other site 561231009430 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 561231009431 TPP-binding site; other site 561231009432 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 561231009433 chorismate binding enzyme; Region: Chorismate_bind; cl10555 561231009434 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 561231009435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561231009436 NAD(P) binding site [chemical binding]; other site 561231009437 active site 561231009438 Predicted transcriptional regulators [Transcription]; Region: COG1733 561231009439 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 561231009440 putative DNA binding site [nucleotide binding]; other site 561231009441 putative Zn2+ binding site [ion binding]; other site 561231009442 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 561231009443 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 561231009444 ATP binding site [chemical binding]; other site 561231009445 G-X-G motif; other site 561231009446 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 561231009447 putative binding surface; other site 561231009448 active site 561231009449 transcriptional regulator RcsB; Provisional; Region: PRK10840 561231009450 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 561231009451 active site 561231009452 phosphorylation site [posttranslational modification] 561231009453 intermolecular recognition site; other site 561231009454 dimerization interface [polypeptide binding]; other site 561231009455 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 561231009456 DNA binding residues [nucleotide binding] 561231009457 dimerization interface [polypeptide binding]; other site 561231009458 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 561231009459 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 561231009460 dimer interface [polypeptide binding]; other site 561231009461 phosphorylation site [posttranslational modification] 561231009462 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 561231009463 ATP binding site [chemical binding]; other site 561231009464 Mg2+ binding site [ion binding]; other site 561231009465 G-X-G motif; other site 561231009466 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 561231009467 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 561231009468 active site 561231009469 phosphorylation site [posttranslational modification] 561231009470 intermolecular recognition site; other site 561231009471 dimerization interface [polypeptide binding]; other site 561231009472 DNA gyrase subunit A; Validated; Region: PRK05560 561231009473 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 561231009474 CAP-like domain; other site 561231009475 active site 561231009476 primary dimer interface [polypeptide binding]; other site 561231009477 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561231009478 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561231009479 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561231009480 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561231009481 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561231009482 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561231009483 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 561231009484 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 561231009485 S-adenosylmethionine binding site [chemical binding]; other site 561231009486 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 561231009487 ATP cone domain; Region: ATP-cone; pfam03477 561231009488 Class I ribonucleotide reductase; Region: RNR_I; cd01679 561231009489 active site 561231009490 dimer interface [polypeptide binding]; other site 561231009491 catalytic residues [active] 561231009492 effector binding site; other site 561231009493 R2 peptide binding site; other site 561231009494 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 561231009495 dimer interface [polypeptide binding]; other site 561231009496 putative radical transfer pathway; other site 561231009497 diiron center [ion binding]; other site 561231009498 tyrosyl radical; other site 561231009499 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 561231009500 catalytic loop [active] 561231009501 iron binding site [ion binding]; other site 561231009502 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 561231009503 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 561231009504 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 561231009505 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 561231009506 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 561231009507 DNA binding residues [nucleotide binding] 561231009508 dimer interface [polypeptide binding]; other site 561231009509 copper binding site [ion binding]; other site 561231009510 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 561231009511 metal-binding site [ion binding] 561231009512 copper exporting ATPase; Provisional; Region: copA; PRK10671 561231009513 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 561231009514 metal-binding site [ion binding] 561231009515 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 561231009516 metal-binding site [ion binding] 561231009517 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 561231009518 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 561231009519 motif II; other site 561231009520 TraB family; Region: TraB; cl12050 561231009521 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 561231009522 putative deacylase active site [active] 561231009523 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 561231009524 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 561231009525 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 561231009526 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 561231009527 P-loop, Walker A motif; other site 561231009528 Base recognition motif; other site 561231009529 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 561231009530 Uncharacterized small protein [Function unknown]; Region: COG2879 561231009531 carbon starvation protein A; Provisional; Region: PRK15015 561231009532 Carbon starvation protein CstA; Region: CstA; pfam02554 561231009533 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 561231009534 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 561231009535 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 561231009536 active site 561231009537 metal binding site [ion binding]; metal-binding site 561231009538 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 561231009539 putative cation:proton antiport protein; Provisional; Region: PRK10669 561231009540 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 561231009541 TrkA-N domain; Region: TrkA_N; pfam02254 561231009542 ferrochelatase; Reviewed; Region: hemH; PRK00035 561231009543 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 561231009544 C-terminal domain interface [polypeptide binding]; other site 561231009545 active site 561231009546 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 561231009547 active site 561231009548 N-terminal domain interface [polypeptide binding]; other site 561231009549 adenylate kinase; Reviewed; Region: adk; PRK00279 561231009550 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 561231009551 AMP-binding site [chemical binding]; other site 561231009552 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 561231009553 heat shock protein 90; Provisional; Region: PRK05218 561231009554 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 561231009555 ATP binding site [chemical binding]; other site 561231009556 Mg2+ binding site [ion binding]; other site 561231009557 G-X-G motif; other site 561231009558 recombination protein RecR; Reviewed; Region: recR; PRK00076 561231009559 RecR protein; Region: RecR; pfam02132 561231009560 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 561231009561 putative active site [active] 561231009562 putative metal-binding site [ion binding]; other site 561231009563 tetramer interface [polypeptide binding]; other site 561231009564 hypothetical protein; Validated; Region: PRK00153 561231009565 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 561231009566 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 561231009567 Walker A motif; other site 561231009568 ATP binding site [chemical binding]; other site 561231009569 Walker B motif; other site 561231009570 DNA polymerase III subunit delta'; Validated; Region: PRK08485 561231009571 arginine finger; other site 561231009572 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 561231009573 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 561231009574 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 561231009575 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561231009576 active site 561231009577 hypothetical protein; Provisional; Region: PRK10527 561231009578 Primosomal replication protein priB and priC; Region: priB_priC; pfam07445 561231009579 hypothetical protein; Provisional; Region: PRK11038 561231009580 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 561231009581 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231009582 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 561231009583 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 561231009584 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231009585 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231009586 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 561231009587 Protein export membrane protein; Region: SecD_SecF; cl14618 561231009588 Protein export membrane protein; Region: SecD_SecF; cl14618 561231009589 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 561231009590 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 561231009591 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 561231009592 gene expression modulator; Provisional; Region: PRK10945 561231009593 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 561231009594 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 561231009595 DNA binding site [nucleotide binding] 561231009596 active site 561231009597 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; pfam09619 561231009598 acyl-CoA thioesterase II; Provisional; Region: PRK10526 561231009599 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 561231009600 active site 561231009601 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 561231009602 catalytic triad [active] 561231009603 dimer interface [polypeptide binding]; other site 561231009604 ammonium transporter; Provisional; Region: PRK10666 561231009605 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 561231009606 Nitrogen regulatory protein P-II; Region: P-II; smart00938 561231009607 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 561231009608 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561231009609 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 561231009610 Walker A/P-loop; other site 561231009611 ATP binding site [chemical binding]; other site 561231009612 Q-loop/lid; other site 561231009613 ABC transporter signature motif; other site 561231009614 Walker B; other site 561231009615 D-loop; other site 561231009616 H-loop/switch region; other site 561231009617 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 561231009618 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561231009619 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231009620 Walker A/P-loop; other site 561231009621 ATP binding site [chemical binding]; other site 561231009622 Q-loop/lid; other site 561231009623 ABC transporter signature motif; other site 561231009624 Walker B; other site 561231009625 D-loop; other site 561231009626 H-loop/switch region; other site 561231009627 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 561231009628 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 561231009629 putative DNA binding site [nucleotide binding]; other site 561231009630 putative Zn2+ binding site [ion binding]; other site 561231009631 AsnC family; Region: AsnC_trans_reg; pfam01037 561231009632 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 561231009633 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 561231009634 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561231009635 catalytic residue [active] 561231009636 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 561231009637 Ligand Binding Site [chemical binding]; other site 561231009638 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 561231009639 active site 561231009640 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 561231009641 periplasmic folding chaperone; Provisional; Region: PRK10788 561231009642 SurA N-terminal domain; Region: SurA_N_3; cl07813 561231009643 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 561231009644 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 561231009645 IHF dimer interface [polypeptide binding]; other site 561231009646 IHF - DNA interface [nucleotide binding]; other site 561231009647 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 561231009648 Found in ATP-dependent protease La (LON); Region: LON; smart00464 561231009649 Found in ATP-dependent protease La (LON); Region: LON; smart00464 561231009650 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 561231009651 Walker A motif; other site 561231009652 ATP binding site [chemical binding]; other site 561231009653 Walker B motif; other site 561231009654 arginine finger; other site 561231009655 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 561231009656 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 561231009657 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 561231009658 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 561231009659 Walker A motif; other site 561231009660 ATP binding site [chemical binding]; other site 561231009661 Walker B motif; other site 561231009662 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 561231009663 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 561231009664 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 561231009665 oligomer interface [polypeptide binding]; other site 561231009666 active site residues [active] 561231009667 trigger factor; Provisional; Region: tig; PRK01490 561231009668 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561231009669 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 561231009670 transcriptional regulator BolA; Provisional; Region: PRK11628 561231009671 hypothetical protein; Provisional; Region: PRK11627 561231009672 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 561231009673 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 561231009674 muropeptide transporter; Reviewed; Region: ampG; PRK11902 561231009675 putative substrate translocation pore; other site 561231009676 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 561231009677 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 561231009678 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 561231009679 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 561231009680 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 561231009681 D-pathway; other site 561231009682 Putative ubiquinol binding site [chemical binding]; other site 561231009683 Low-spin heme (heme b) binding site [chemical binding]; other site 561231009684 Putative water exit pathway; other site 561231009685 Binuclear center (heme o3/CuB) [ion binding]; other site 561231009686 K-pathway; other site 561231009687 Putative proton exit pathway; other site 561231009688 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 561231009689 Subunit I/III interface [polypeptide binding]; other site 561231009690 Subunit III/IV interface [polypeptide binding]; other site 561231009691 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 561231009692 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 561231009693 UbiA prenyltransferase family; Region: UbiA; pfam01040 561231009694 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 561231009695 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561231009696 putative substrate translocation pore; other site 561231009697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 561231009698 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 561231009699 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 561231009700 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 561231009701 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 561231009702 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 561231009703 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 561231009704 conserved cys residue [active] 561231009705 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 561231009706 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 561231009707 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 561231009708 Ligand Binding Site [chemical binding]; other site 561231009709 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 561231009710 active site residue [active] 561231009711 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 561231009712 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 561231009713 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 561231009714 substrate binding pocket [chemical binding]; other site 561231009715 chain length determination region; other site 561231009716 substrate-Mg2+ binding site; other site 561231009717 catalytic residues [active] 561231009718 aspartate-rich region 1; other site 561231009719 active site lid residues [active] 561231009720 aspartate-rich region 2; other site 561231009721 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 561231009722 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 561231009723 TPP-binding site; other site 561231009724 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 561231009725 PYR/PP interface [polypeptide binding]; other site 561231009726 dimer interface [polypeptide binding]; other site 561231009727 TPP binding site [chemical binding]; other site 561231009728 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 561231009729 thiamine monophosphate kinase; Provisional; Region: PRK05731 561231009730 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 561231009731 ATP binding site [chemical binding]; other site 561231009732 dimerization interface [polypeptide binding]; other site 561231009733 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 561231009734 putative RNA binding site [nucleotide binding]; other site 561231009735 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 561231009736 homopentamer interface [polypeptide binding]; other site 561231009737 active site 561231009738 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 561231009739 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 561231009740 catalytic motif [active] 561231009741 Zn binding site [ion binding]; other site 561231009742 RibD C-terminal domain; Region: RibD_C; cl17279 561231009743 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 561231009744 ATP cone domain; Region: ATP-cone; pfam03477 561231009745 hypothetical protein; Provisional; Region: PRK11530 561231009746 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 561231009747 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 561231009748 Protein export membrane protein; Region: SecD_SecF; pfam02355 561231009749 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 561231009750 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 561231009751 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 561231009752 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 561231009753 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 561231009754 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 561231009755 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 561231009756 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 561231009757 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 561231009758 Protein of unknown function, DUF479; Region: DUF479; cl01203 561231009759 peroxidase; Provisional; Region: PRK15000 561231009760 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 561231009761 dimer interface [polypeptide binding]; other site 561231009762 decamer (pentamer of dimers) interface [polypeptide binding]; other site 561231009763 catalytic triad [active] 561231009764 peroxidatic and resolving cysteines [active] 561231009765 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 561231009766 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561231009767 putative proline-specific permease; Provisional; Region: proY; PRK10580 561231009768 Spore germination protein; Region: Spore_permease; cl17796 561231009769 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 561231009770 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 561231009771 substrate binding site [chemical binding]; other site 561231009772 THF binding site; other site 561231009773 zinc-binding site [ion binding]; other site 561231009774 PBP superfamily domain; Region: PBP_like_2; cl17296 561231009775 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 561231009776 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 561231009777 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 561231009778 putative active site [active] 561231009779 heme pocket [chemical binding]; other site 561231009780 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 561231009781 dimer interface [polypeptide binding]; other site 561231009782 phosphorylation site [posttranslational modification] 561231009783 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 561231009784 ATP binding site [chemical binding]; other site 561231009785 Mg2+ binding site [ion binding]; other site 561231009786 G-X-G motif; other site 561231009787 transcriptional regulator PhoB; Provisional; Region: PRK10161 561231009788 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 561231009789 active site 561231009790 phosphorylation site [posttranslational modification] 561231009791 intermolecular recognition site; other site 561231009792 dimerization interface [polypeptide binding]; other site 561231009793 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 561231009794 DNA binding site [nucleotide binding] 561231009795 exonuclease subunit SbcD; Provisional; Region: PRK10966 561231009796 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 561231009797 active site 561231009798 metal binding site [ion binding]; metal-binding site 561231009799 DNA binding site [nucleotide binding] 561231009800 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 561231009801 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231009802 AAA domain; Region: AAA_23; pfam13476 561231009803 Walker A/P-loop; other site 561231009804 ATP binding site [chemical binding]; other site 561231009805 Q-loop/lid; other site 561231009806 exonuclease subunit SbcC; Provisional; Region: PRK10246 561231009807 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231009808 Q-loop/lid; other site 561231009809 ABC transporter signature motif; other site 561231009810 Walker B; other site 561231009811 D-loop; other site 561231009812 H-loop/switch region; other site 561231009813 fructokinase; Reviewed; Region: PRK09557 561231009814 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561231009815 nucleotide binding site [chemical binding]; other site 561231009816 Acetokinase family; Region: Acetate_kinase; cl17229 561231009817 recombination associated protein; Reviewed; Region: rdgC; PRK00321 561231009818 Cache domain; Region: Cache_1; pfam02743 561231009819 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561231009820 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 561231009821 dimerization interface [polypeptide binding]; other site 561231009822 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231009823 dimer interface [polypeptide binding]; other site 561231009824 putative CheW interface [polypeptide binding]; other site 561231009825 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 561231009826 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231009827 DNA-binding site [nucleotide binding]; DNA binding site 561231009828 UTRA domain; Region: UTRA; pfam07702 561231009829 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561231009830 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 561231009831 substrate binding site [chemical binding]; other site 561231009832 ATP binding site [chemical binding]; other site 561231009833 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 561231009834 nucleoside transporter; Region: 2A0110; TIGR00889 561231009835 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 561231009836 putative substrate translocation pore; other site 561231009837 hypothetical protein; Provisional; Region: PRK10579 561231009838 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 561231009839 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 561231009840 ADP binding site [chemical binding]; other site 561231009841 magnesium binding site [ion binding]; other site 561231009842 putative shikimate binding site; other site 561231009843 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 561231009844 active site 561231009845 homodimer interface [polypeptide binding]; other site 561231009846 homotetramer interface [polypeptide binding]; other site 561231009847 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 561231009848 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561231009849 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 561231009850 Walker A/P-loop; other site 561231009851 ATP binding site [chemical binding]; other site 561231009852 Q-loop/lid; other site 561231009853 ABC transporter signature motif; other site 561231009854 Walker B; other site 561231009855 D-loop; other site 561231009856 H-loop/switch region; other site 561231009857 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 561231009858 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 561231009859 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561231009860 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 561231009861 Walker A/P-loop; other site 561231009862 ATP binding site [chemical binding]; other site 561231009863 Q-loop/lid; other site 561231009864 ABC transporter signature motif; other site 561231009865 Walker B; other site 561231009866 D-loop; other site 561231009867 H-loop/switch region; other site 561231009868 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 561231009869 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231009870 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231009871 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 561231009872 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 561231009873 Pectate lyase; Region: Pectate_lyase; pfam03211 561231009874 mannonate dehydratase; Provisional; Region: PRK03906 561231009875 mannonate dehydratase; Region: uxuA; TIGR00695 561231009876 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 561231009877 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231009878 DNA-binding site [nucleotide binding]; DNA binding site 561231009879 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 561231009880 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 561231009881 Esterase/lipase [General function prediction only]; Region: COG1647 561231009882 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 561231009883 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 561231009884 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 561231009885 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231009886 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231009887 metal binding site [ion binding]; metal-binding site 561231009888 active site 561231009889 I-site; other site 561231009890 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231009891 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231009892 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 561231009893 putative dimerization interface [polypeptide binding]; other site 561231009894 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561231009895 Transglycosylase SLT domain; Region: SLT_2; pfam13406 561231009896 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 561231009897 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561231009898 catalytic residue [active] 561231009899 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 561231009900 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 561231009901 PhnA protein; Region: PhnA; pfam03831 561231009902 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 561231009903 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 561231009904 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 561231009905 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 561231009906 MutS domain I; Region: MutS_I; pfam01624 561231009907 MutS domain II; Region: MutS_II; pfam05188 561231009908 MutS domain III; Region: MutS_III; pfam05192 561231009909 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 561231009910 Walker A/P-loop; other site 561231009911 ATP binding site [chemical binding]; other site 561231009912 Q-loop/lid; other site 561231009913 ABC transporter signature motif; other site 561231009914 Walker B; other site 561231009915 D-loop; other site 561231009916 H-loop/switch region; other site 561231009917 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 561231009918 NlpE N-terminal domain; Region: NlpE; pfam04170 561231009919 YaeQ protein; Region: YaeQ; pfam07152 561231009920 hypothetical protein; Provisional; Region: PRK04964 561231009921 Rho-binding antiterminator; Provisional; Region: PRK11625 561231009922 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 561231009923 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 561231009924 Ligand Binding Site [chemical binding]; other site 561231009925 TilS substrate binding domain; Region: TilS; pfam09179 561231009926 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 561231009927 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 561231009928 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561231009929 putative metal binding site [ion binding]; other site 561231009930 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 561231009931 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 561231009932 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 561231009933 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 561231009934 putative active site [active] 561231009935 putative PHP Thumb interface [polypeptide binding]; other site 561231009936 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 561231009937 generic binding surface II; other site 561231009938 generic binding surface I; other site 561231009939 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 561231009940 RNA/DNA hybrid binding site [nucleotide binding]; other site 561231009941 active site 561231009942 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 561231009943 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 561231009944 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 561231009945 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 561231009946 active site 561231009947 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 561231009948 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 561231009949 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 561231009950 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 561231009951 trimer interface [polypeptide binding]; other site 561231009952 active site 561231009953 UDP-GlcNAc binding site [chemical binding]; other site 561231009954 lipid binding site [chemical binding]; lipid-binding site 561231009955 periplasmic chaperone; Provisional; Region: PRK10780 561231009956 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 561231009957 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 561231009958 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561231009959 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561231009960 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561231009961 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561231009962 Surface antigen; Region: Bac_surface_Ag; pfam01103 561231009963 zinc metallopeptidase RseP; Provisional; Region: PRK10779 561231009964 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 561231009965 active site 561231009966 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 561231009967 protein binding site [polypeptide binding]; other site 561231009968 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 561231009969 protein binding site [polypeptide binding]; other site 561231009970 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 561231009971 putative substrate binding region [chemical binding]; other site 561231009972 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 561231009973 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 561231009974 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 561231009975 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 561231009976 catalytic residue [active] 561231009977 putative FPP diphosphate binding site; other site 561231009978 putative FPP binding hydrophobic cleft; other site 561231009979 dimer interface [polypeptide binding]; other site 561231009980 putative IPP diphosphate binding site; other site 561231009981 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 561231009982 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 561231009983 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 561231009984 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 561231009985 ribosome recycling factor; Reviewed; Region: frr; PRK00083 561231009986 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 561231009987 hinge region; other site 561231009988 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 561231009989 putative nucleotide binding site [chemical binding]; other site 561231009990 uridine monophosphate binding site [chemical binding]; other site 561231009991 homohexameric interface [polypeptide binding]; other site 561231009992 elongation factor Ts; Provisional; Region: tsf; PRK09377 561231009993 UBA/TS-N domain; Region: UBA; pfam00627 561231009994 Elongation factor TS; Region: EF_TS; pfam00889 561231009995 Elongation factor TS; Region: EF_TS; pfam00889 561231009996 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 561231009997 rRNA interaction site [nucleotide binding]; other site 561231009998 S8 interaction site; other site 561231009999 putative laminin-1 binding site; other site 561231010000 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 561231010001 active site 561231010002 PII uridylyl-transferase; Provisional; Region: PRK05007 561231010003 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 561231010004 metal binding triad; other site 561231010005 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 561231010006 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 561231010007 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 561231010008 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 561231010009 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 561231010010 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 561231010011 trimer interface [polypeptide binding]; other site 561231010012 active site 561231010013 substrate binding site [chemical binding]; other site 561231010014 CoA binding site [chemical binding]; other site 561231010015 hypothetical protein; Provisional; Region: PRK13677 561231010016 flavodoxin; Provisional; Region: PRK08105 561231010017 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 561231010018 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 561231010019 probable active site [active] 561231010020 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 561231010021 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561231010022 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 561231010023 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 561231010024 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 561231010025 active site 561231010026 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 561231010027 SecY interacting protein Syd; Provisional; Region: PRK04968 561231010028 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 561231010029 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 561231010030 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 561231010031 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 561231010032 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 561231010033 flap endonuclease-like protein; Provisional; Region: PRK09482 561231010034 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 561231010035 active site 561231010036 metal binding site 1 [ion binding]; metal-binding site 561231010037 putative 5' ssDNA interaction site; other site 561231010038 metal binding site 3; metal-binding site 561231010039 metal binding site 2 [ion binding]; metal-binding site 561231010040 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 561231010041 putative DNA binding site [nucleotide binding]; other site 561231010042 putative metal binding site [ion binding]; other site 561231010043 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 561231010044 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 561231010045 hypothetical protein; Provisional; Region: PRK10873 561231010046 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 561231010047 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231010048 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 561231010049 dimerization interface [polypeptide binding]; other site 561231010050 substrate binding pocket [chemical binding]; other site 561231010051 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 561231010052 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 561231010053 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 561231010054 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561231010055 catalytic residue [active] 561231010056 Fe-S metabolism associated domain; Region: SufE; cl00951 561231010057 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 561231010058 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 561231010059 putative ATP binding site [chemical binding]; other site 561231010060 putative substrate interface [chemical binding]; other site 561231010061 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 561231010062 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 561231010063 molybdopterin cofactor binding site [chemical binding]; other site 561231010064 substrate binding site [chemical binding]; other site 561231010065 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 561231010066 molybdopterin cofactor binding site; other site 561231010067 murein transglycosylase A; Provisional; Region: mltA; PRK11162 561231010068 MltA specific insert domain; Region: MltA; smart00925 561231010069 3D domain; Region: 3D; pfam06725 561231010070 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 561231010071 AMIN domain; Region: AMIN; pfam11741 561231010072 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 561231010073 active site 561231010074 metal binding site [ion binding]; metal-binding site 561231010075 N-acetylglutamate synthase; Validated; Region: PRK05279 561231010076 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 561231010077 putative feedback inhibition sensing region; other site 561231010078 putative nucleotide binding site [chemical binding]; other site 561231010079 putative substrate binding site [chemical binding]; other site 561231010080 N-acetylglutamate synthase and related acetyltransferases [Amino acid transport and metabolism]; Region: ArgA; COG1246 561231010081 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 561231010082 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 561231010083 active site pocket [active] 561231010084 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561231010085 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231010086 DNA binding site [nucleotide binding] 561231010087 domain linker motif; other site 561231010088 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 561231010089 putative dimerization interface [polypeptide binding]; other site 561231010090 putative ligand binding site [chemical binding]; other site 561231010091 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 561231010092 AAA domain; Region: AAA_30; pfam13604 561231010093 Family description; Region: UvrD_C_2; pfam13538 561231010094 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 561231010095 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 561231010096 protease3; Provisional; Region: PRK15101 561231010097 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 561231010098 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561231010099 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561231010100 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 561231010101 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 561231010102 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 561231010103 Protein of unknown function (DUF2509); Region: DUF2509; pfam10713 561231010104 hypothetical protein; Provisional; Region: PRK10557 561231010105 hypothetical protein; Provisional; Region: PRK10506 561231010106 thymidylate synthase; Reviewed; Region: thyA; PRK01827 561231010107 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 561231010108 dimerization interface [polypeptide binding]; other site 561231010109 active site 561231010110 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 561231010111 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 561231010112 GAF domain; Region: GAF; pfam01590 561231010113 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 561231010114 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 561231010115 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 561231010116 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 561231010117 putative active site [active] 561231010118 Ap4A binding site [chemical binding]; other site 561231010119 nudix motif; other site 561231010120 putative metal binding site [ion binding]; other site 561231010121 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 561231010122 putative DNA-binding cleft [nucleotide binding]; other site 561231010123 putative DNA clevage site; other site 561231010124 molecular lever; other site 561231010125 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 561231010126 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 561231010127 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561231010128 active site 561231010129 catalytic tetrad [active] 561231010130 hypothetical protein; Provisional; Region: PRK10626 561231010131 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 561231010132 hypothetical protein; Provisional; Region: PRK11702 561231010133 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 561231010134 adenine DNA glycosylase; Provisional; Region: PRK10880 561231010135 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 561231010136 minor groove reading motif; other site 561231010137 helix-hairpin-helix signature motif; other site 561231010138 substrate binding pocket [chemical binding]; other site 561231010139 active site 561231010140 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 561231010141 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 561231010142 DNA binding and oxoG recognition site [nucleotide binding] 561231010143 oxidative damage protection protein; Provisional; Region: PRK05408 561231010144 murein transglycosylase C; Provisional; Region: mltC; PRK11671 561231010145 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 561231010146 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 561231010147 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561231010148 catalytic residue [active] 561231010149 Helix-turn-helix domain; Region: HTH_18; pfam12833 561231010150 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 561231010151 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561231010152 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 561231010153 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 561231010154 hypothetical protein; Provisional; Region: PRK02399 561231010155 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 561231010156 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561231010157 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231010158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561231010159 L-asparagine permease; Provisional; Region: PRK15049 561231010160 ornithine decarboxylase; Provisional; Region: PRK13578 561231010161 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 561231010162 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 561231010163 homodimer interface [polypeptide binding]; other site 561231010164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231010165 catalytic residue [active] 561231010166 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 561231010167 integrase; Provisional; Region: PRK09692 561231010168 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561231010169 active site 561231010170 Int/Topo IB signature motif; other site 561231010171 Iron permease FTR1 family; Region: FTR1; cl00475 561231010172 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561231010173 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 561231010174 non-specific DNA binding site [nucleotide binding]; other site 561231010175 salt bridge; other site 561231010176 sequence-specific DNA binding site [nucleotide binding]; other site 561231010177 CRD_domain cysteine-rich domain, also known as Fz (frizzled) domain; Region: CRD_FZ; cl02447 561231010178 multiple promoter invertase; Provisional; Region: mpi; PRK13413 561231010179 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 561231010180 catalytic residues [active] 561231010181 catalytic nucleophile [active] 561231010182 Presynaptic Site I dimer interface [polypeptide binding]; other site 561231010183 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 561231010184 Synaptic Flat tetramer interface [polypeptide binding]; other site 561231010185 Synaptic Site I dimer interface [polypeptide binding]; other site 561231010186 DNA binding site [nucleotide binding] 561231010187 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 561231010188 DNA-binding interface [nucleotide binding]; DNA binding site 561231010189 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 561231010190 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 561231010191 Int/Topo IB signature motif; other site 561231010192 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 561231010193 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 561231010194 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 561231010195 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 561231010196 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 561231010197 putative catalytic cysteine [active] 561231010198 gamma-glutamyl kinase; Provisional; Region: PRK05429 561231010199 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 561231010200 nucleotide binding site [chemical binding]; other site 561231010201 homotetrameric interface [polypeptide binding]; other site 561231010202 putative phosphate binding site [ion binding]; other site 561231010203 putative allosteric binding site; other site 561231010204 PUA domain; Region: PUA; pfam01472 561231010205 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 561231010206 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 561231010207 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231010208 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 561231010209 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 561231010210 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231010211 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231010212 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 561231010213 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 561231010214 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 561231010215 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 561231010216 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 561231010217 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561231010218 active site 561231010219 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 561231010220 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 561231010221 metal binding site [ion binding]; metal-binding site 561231010222 dimer interface [polypeptide binding]; other site 561231010223 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 561231010224 active site 561231010225 DNA polymerase IV; Validated; Region: PRK02406 561231010226 DNA binding site [nucleotide binding] 561231010227 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561231010228 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 561231010229 salt bridge; other site 561231010230 non-specific DNA binding site [nucleotide binding]; other site 561231010231 sequence-specific DNA binding site [nucleotide binding]; other site 561231010232 Methyltransferase domain; Region: Methyltransf_31; pfam13847 561231010233 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 561231010234 S-adenosylmethionine binding site [chemical binding]; other site 561231010235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 561231010236 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 561231010237 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 561231010238 putative active site [active] 561231010239 putative dimer interface [polypeptide binding]; other site 561231010240 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 561231010241 dimer interface [polypeptide binding]; other site 561231010242 active site 561231010243 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 561231010244 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 561231010245 active site 561231010246 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 561231010247 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 561231010248 active site 561231010249 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 561231010250 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 561231010251 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 561231010252 PAAR motif; Region: PAAR_motif; pfam05488 561231010253 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 561231010254 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561231010255 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561231010256 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561231010257 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 561231010258 Cupin domain; Region: Cupin_2; cl17218 561231010259 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 561231010260 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 561231010261 motif II; other site 561231010262 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 561231010263 intersubunit interface [polypeptide binding]; other site 561231010264 active site 561231010265 Zn2+ binding site [ion binding]; other site 561231010266 methionine aminotransferase; Validated; Region: PRK09082 561231010267 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 561231010268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231010269 homodimer interface [polypeptide binding]; other site 561231010270 catalytic residue [active] 561231010271 C-N hydrolase family amidase; Provisional; Region: PRK10438 561231010272 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 561231010273 putative active site [active] 561231010274 catalytic triad [active] 561231010275 dimer interface [polypeptide binding]; other site 561231010276 multimer interface [polypeptide binding]; other site 561231010277 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 561231010278 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 561231010279 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 561231010280 dimer interface [polypeptide binding]; other site 561231010281 active site 561231010282 glycine loop; other site 561231010283 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 561231010284 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231010285 substrate binding pocket [chemical binding]; other site 561231010286 membrane-bound complex binding site; other site 561231010287 hinge residues; other site 561231010288 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 561231010289 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 561231010290 inhibitor-cofactor binding pocket; inhibition site 561231010291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231010292 catalytic residue [active] 561231010293 allantoate amidohydrolase; Reviewed; Region: PRK09290 561231010294 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 561231010295 active site 561231010296 metal binding site [ion binding]; metal-binding site 561231010297 dimer interface [polypeptide binding]; other site 561231010298 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 561231010299 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561231010300 catalytic residue [active] 561231010301 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561231010302 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561231010303 Walker A/P-loop; other site 561231010304 ATP binding site [chemical binding]; other site 561231010305 Q-loop/lid; other site 561231010306 ABC transporter signature motif; other site 561231010307 Walker B; other site 561231010308 D-loop; other site 561231010309 H-loop/switch region; other site 561231010310 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 561231010311 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 561231010312 ABC-ATPase subunit interface; other site 561231010313 putative PBP binding loops; other site 561231010314 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 561231010315 dimer interface [polypeptide binding]; other site 561231010316 conserved gate region; other site 561231010317 putative PBP binding loops; other site 561231010318 ABC-ATPase subunit interface; other site 561231010319 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561231010320 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231010321 substrate binding pocket [chemical binding]; other site 561231010322 membrane-bound complex binding site; other site 561231010323 hinge residues; other site 561231010324 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 561231010325 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 561231010326 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 561231010327 putative active site [active] 561231010328 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 561231010329 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 561231010330 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 561231010331 amidase; Provisional; Region: PRK09201 561231010332 Amidase; Region: Amidase; cl11426 561231010333 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 561231010334 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 561231010335 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561231010336 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 561231010337 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 561231010338 Walker A/P-loop; other site 561231010339 ATP binding site [chemical binding]; other site 561231010340 Q-loop/lid; other site 561231010341 ABC transporter signature motif; other site 561231010342 Walker B; other site 561231010343 D-loop; other site 561231010344 H-loop/switch region; other site 561231010345 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 561231010346 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 561231010347 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 561231010348 dimer interface [polypeptide binding]; other site 561231010349 conserved gate region; other site 561231010350 putative PBP binding loops; other site 561231010351 ABC-ATPase subunit interface; other site 561231010352 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 561231010353 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 561231010354 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 561231010355 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 561231010356 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 561231010357 CGNR zinc finger; Region: zf-CGNR; pfam11706 561231010358 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561231010359 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 561231010360 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 561231010361 putative L-valine exporter; Provisional; Region: PRK10408 561231010362 transcriptional repressor MprA; Provisional; Region: PRK10870 561231010363 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561231010364 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 561231010365 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561231010366 HlyD family secretion protein; Region: HlyD_3; pfam13437 561231010367 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 561231010368 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 561231010369 putative substrate translocation pore; other site 561231010370 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 561231010371 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 561231010372 putative methyltransferase; Provisional; Region: PRK10864 561231010373 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 561231010374 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561231010375 thioredoxin 2; Provisional; Region: PRK10996 561231010376 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 561231010377 catalytic residues [active] 561231010378 Uncharacterized conserved protein [Function unknown]; Region: COG3148 561231010379 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 561231010380 CoA binding domain; Region: CoA_binding_2; pfam13380 561231010381 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 561231010382 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 561231010383 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561231010384 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 561231010385 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 561231010386 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 561231010387 domain interface [polypeptide binding]; other site 561231010388 putative active site [active] 561231010389 catalytic site [active] 561231010390 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 561231010391 domain interface [polypeptide binding]; other site 561231010392 putative active site [active] 561231010393 catalytic site [active] 561231010394 lipoprotein; Provisional; Region: PRK10759 561231010395 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 561231010396 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 561231010397 putative substrate translocation pore; other site 561231010398 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 561231010399 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 561231010400 active site 561231010401 motif I; other site 561231010402 motif II; other site 561231010403 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 561231010404 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 561231010405 Walker A/P-loop; other site 561231010406 ATP binding site [chemical binding]; other site 561231010407 Q-loop/lid; other site 561231010408 ABC transporter signature motif; other site 561231010409 Walker B; other site 561231010410 D-loop; other site 561231010411 H-loop/switch region; other site 561231010412 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 561231010413 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 561231010414 dimer interface [polypeptide binding]; other site 561231010415 conserved gate region; other site 561231010416 ABC-ATPase subunit interface; other site 561231010417 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 561231010418 lipoprotein, YaeC family; Region: TIGR00363 561231010419 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 561231010420 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 561231010421 homodimer interaction site [polypeptide binding]; other site 561231010422 cofactor binding site; other site 561231010423 prolyl-tRNA synthetase; Provisional; Region: PRK09194 561231010424 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_prok; cd00779 561231010425 dimer interface [polypeptide binding]; other site 561231010426 motif 1; other site 561231010427 active site 561231010428 motif 2; other site 561231010429 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 561231010430 putative deacylase active site [active] 561231010431 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 561231010432 active site 561231010433 motif 3; other site 561231010434 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 561231010435 anticodon binding site; other site 561231010436 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 561231010437 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 561231010438 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561231010439 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 561231010440 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 561231010441 DNA binding residues [nucleotide binding] 561231010442 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 561231010443 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561231010444 Peptidase family M23; Region: Peptidase_M23; pfam01551 561231010445 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 561231010446 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 561231010447 S-adenosylmethionine binding site [chemical binding]; other site 561231010448 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 561231010449 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 561231010450 Permutation of conserved domain; other site 561231010451 active site 561231010452 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 561231010453 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 561231010454 homotrimer interaction site [polypeptide binding]; other site 561231010455 zinc binding site [ion binding]; other site 561231010456 CDP-binding sites; other site 561231010457 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 561231010458 substrate binding site; other site 561231010459 dimer interface; other site 561231010460 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 561231010461 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 561231010462 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231010463 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561231010464 substrate binding pocket [chemical binding]; other site 561231010465 membrane-bound complex binding site; other site 561231010466 hinge residues; other site 561231010467 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 561231010468 dimer interface [polypeptide binding]; other site 561231010469 conserved gate region; other site 561231010470 putative PBP binding loops; other site 561231010471 ABC-ATPase subunit interface; other site 561231010472 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561231010473 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561231010474 Walker A/P-loop; other site 561231010475 ATP binding site [chemical binding]; other site 561231010476 Q-loop/lid; other site 561231010477 ABC transporter signature motif; other site 561231010478 Walker B; other site 561231010479 D-loop; other site 561231010480 H-loop/switch region; other site 561231010481 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 561231010482 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 561231010483 ligand-binding site [chemical binding]; other site 561231010484 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 561231010485 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 561231010486 CysD dimerization site [polypeptide binding]; other site 561231010487 G1 box; other site 561231010488 putative GEF interaction site [polypeptide binding]; other site 561231010489 GTP/Mg2+ binding site [chemical binding]; other site 561231010490 Switch I region; other site 561231010491 G2 box; other site 561231010492 G3 box; other site 561231010493 Switch II region; other site 561231010494 G4 box; other site 561231010495 G5 box; other site 561231010496 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 561231010497 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 561231010498 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 561231010499 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 561231010500 Active Sites [active] 561231010501 siroheme synthase; Provisional; Region: cysG; PRK10637 561231010502 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 561231010503 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 561231010504 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 561231010505 active site 561231010506 SAM binding site [chemical binding]; other site 561231010507 homodimer interface [polypeptide binding]; other site 561231010508 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561231010509 active site 561231010510 phosphorylation site [posttranslational modification] 561231010511 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 561231010512 active site 561231010513 P-loop; other site 561231010514 phosphorylation site [posttranslational modification] 561231010515 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 561231010516 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 561231010517 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 561231010518 beta-galactosidase; Region: BGL; TIGR03356 561231010519 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561231010520 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231010521 DNA binding site [nucleotide binding] 561231010522 domain linker motif; other site 561231010523 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 561231010524 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 561231010525 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 561231010526 Active Sites [active] 561231010527 sulfite reductase subunit beta; Provisional; Region: PRK13504 561231010528 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561231010529 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561231010530 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 561231010531 Flavodoxin; Region: Flavodoxin_1; pfam00258 561231010532 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 561231010533 FAD binding pocket [chemical binding]; other site 561231010534 FAD binding motif [chemical binding]; other site 561231010535 catalytic residues [active] 561231010536 NAD binding pocket [chemical binding]; other site 561231010537 phosphate binding motif [ion binding]; other site 561231010538 beta-alpha-beta structure motif; other site 561231010539 PilZ domain; Region: PilZ; pfam07238 561231010540 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561231010541 Zn2+ binding site [ion binding]; other site 561231010542 Mg2+ binding site [ion binding]; other site 561231010543 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 561231010544 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 561231010545 active site 561231010546 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 561231010547 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 561231010548 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 561231010549 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561231010550 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561231010551 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561231010552 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 561231010553 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 561231010554 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 561231010555 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 561231010556 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 561231010557 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 561231010558 PAAR motif; Region: PAAR_motif; pfam05488 561231010559 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 561231010560 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 561231010561 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 561231010562 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 561231010563 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 561231010564 putative ligand binding residues [chemical binding]; other site 561231010565 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561231010566 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 561231010567 N-terminal plug; other site 561231010568 ligand-binding site [chemical binding]; other site 561231010569 enolase; Provisional; Region: eno; PRK00077 561231010570 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 561231010571 dimer interface [polypeptide binding]; other site 561231010572 metal binding site [ion binding]; metal-binding site 561231010573 substrate binding pocket [chemical binding]; other site 561231010574 CTP synthetase; Validated; Region: pyrG; PRK05380 561231010575 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 561231010576 Catalytic site [active] 561231010577 active site 561231010578 UTP binding site [chemical binding]; other site 561231010579 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 561231010580 active site 561231010581 putative oxyanion hole; other site 561231010582 catalytic triad [active] 561231010583 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 561231010584 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 561231010585 homodimer interface [polypeptide binding]; other site 561231010586 metal binding site [ion binding]; metal-binding site 561231010587 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 561231010588 homodimer interface [polypeptide binding]; other site 561231010589 active site 561231010590 putative chemical substrate binding site [chemical binding]; other site 561231010591 metal binding site [ion binding]; metal-binding site 561231010592 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 561231010593 HD domain; Region: HD_4; pfam13328 561231010594 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 561231010595 synthetase active site [active] 561231010596 NTP binding site [chemical binding]; other site 561231010597 metal binding site [ion binding]; metal-binding site 561231010598 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 561231010599 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 561231010600 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 561231010601 TRAM domain; Region: TRAM; pfam01938 561231010602 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 561231010603 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 561231010604 S-adenosylmethionine binding site [chemical binding]; other site 561231010605 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 561231010606 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 561231010607 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 561231010608 dimerization interface [polypeptide binding]; other site 561231010609 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 561231010610 dimer interface [polypeptide binding]; other site 561231010611 phosphorylation site [posttranslational modification] 561231010612 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 561231010613 ATP binding site [chemical binding]; other site 561231010614 Mg2+ binding site [ion binding]; other site 561231010615 G-X-G motif; other site 561231010616 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 561231010617 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 561231010618 active site 561231010619 phosphorylation site [posttranslational modification] 561231010620 intermolecular recognition site; other site 561231010621 dimerization interface [polypeptide binding]; other site 561231010622 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 561231010623 putative binding surface; other site 561231010624 active site 561231010625 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 561231010626 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 561231010627 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 561231010628 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 561231010629 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 561231010630 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 561231010631 active site 561231010632 tetramer interface [polypeptide binding]; other site 561231010633 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 561231010634 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 561231010635 active site 561231010636 tetramer interface [polypeptide binding]; other site 561231010637 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 561231010638 D-galactonate transporter; Region: 2A0114; TIGR00893 561231010639 putative substrate translocation pore; other site 561231010640 galactarate dehydratase; Region: galactar-dH20; TIGR03248 561231010641 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 561231010642 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 561231010643 PAS domain; Region: PAS_9; pfam13426 561231010644 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 561231010645 putative active site [active] 561231010646 heme pocket [chemical binding]; other site 561231010647 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 561231010648 dimerization interface [polypeptide binding]; other site 561231010649 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231010650 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231010651 dimer interface [polypeptide binding]; other site 561231010652 putative CheW interface [polypeptide binding]; other site 561231010653 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 561231010654 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 561231010655 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 561231010656 nucleotide binding pocket [chemical binding]; other site 561231010657 K-X-D-G motif; other site 561231010658 catalytic site [active] 561231010659 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 561231010660 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 561231010661 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 561231010662 Dimer interface [polypeptide binding]; other site 561231010663 BRCT sequence motif; other site 561231010664 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 561231010665 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 561231010666 putative ribose interaction site [chemical binding]; other site 561231010667 putative ADP binding site [chemical binding]; other site 561231010668 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 561231010669 active site 561231010670 nucleotide binding site [chemical binding]; other site 561231010671 HIGH motif; other site 561231010672 KMSKS motif; other site 561231010673 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 561231010674 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 561231010675 metal binding triad; other site 561231010676 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 561231010677 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 561231010678 metal binding triad; other site 561231010679 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 561231010680 Uncharacterized conserved protein [Function unknown]; Region: COG3025 561231010681 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 561231010682 putative active site [active] 561231010683 putative metal binding residues [ion binding]; other site 561231010684 signature motif; other site 561231010685 putative triphosphate binding site [ion binding]; other site 561231010686 SH3 domain-containing protein; Provisional; Region: PRK10884 561231010687 Bacterial SH3 domain homologues; Region: SH3b; smart00287 561231010688 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 561231010689 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 561231010690 active site 561231010691 NTP binding site [chemical binding]; other site 561231010692 metal binding triad [ion binding]; metal-binding site 561231010693 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 561231010694 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561231010695 Zn2+ binding site [ion binding]; other site 561231010696 Mg2+ binding site [ion binding]; other site 561231010697 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 561231010698 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 561231010699 homooctamer interface [polypeptide binding]; other site 561231010700 active site 561231010701 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 561231010702 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561231010703 dimer interface [polypeptide binding]; other site 561231010704 ligand binding site [chemical binding]; other site 561231010705 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 561231010706 dimerization interface [polypeptide binding]; other site 561231010707 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231010708 dimer interface [polypeptide binding]; other site 561231010709 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561231010710 putative CheW interface [polypeptide binding]; other site 561231010711 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 561231010712 dimer interface [polypeptide binding]; other site 561231010713 substrate binding site [chemical binding]; other site 561231010714 metal binding sites [ion binding]; metal-binding site 561231010715 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 561231010716 putative active site pocket [active] 561231010717 dimerization interface [polypeptide binding]; other site 561231010718 putative catalytic residue [active] 561231010719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 561231010720 Family of unknown function (DUF490); Region: DUF490; pfam04357 561231010721 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 561231010722 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561231010723 Surface antigen; Region: Bac_surface_Ag; pfam01103 561231010724 methionine sulfoxide reductase A; Provisional; Region: PRK00058 561231010725 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 561231010726 Domain of unknown function DUF21; Region: DUF21; pfam01595 561231010727 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 561231010728 Transporter associated domain; Region: CorC_HlyC; smart01091 561231010729 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 561231010730 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 561231010731 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 561231010732 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 561231010733 active site 561231010734 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 561231010735 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 561231010736 active site 561231010737 metal binding site [ion binding]; metal-binding site 561231010738 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 561231010739 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 561231010740 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561231010741 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 561231010742 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 561231010743 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 561231010744 Hemerythrin-like domain; Region: Hr-like; cd12108 561231010745 Fe binding site [ion binding]; other site 561231010746 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 561231010747 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 561231010748 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561231010749 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 561231010750 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 561231010751 Protein of unknown function, DUF488; Region: DUF488; cl01246 561231010752 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 561231010753 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 561231010754 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 561231010755 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 561231010756 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 561231010757 dimer interface [polypeptide binding]; other site 561231010758 ssDNA binding site [nucleotide binding]; other site 561231010759 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561231010760 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 561231010761 esterase; Provisional; Region: PRK10566 561231010762 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 561231010763 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561231010764 PAS fold; Region: PAS_4; pfam08448 561231010765 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 561231010766 dimerization interface [polypeptide binding]; other site 561231010767 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231010768 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231010769 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231010770 dimer interface [polypeptide binding]; other site 561231010771 putative CheW interface [polypeptide binding]; other site 561231010772 hypothetical protein; Reviewed; Region: PRK09588 561231010773 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 561231010774 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 561231010775 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 561231010776 Predicted membrane protein [Function unknown]; Region: COG3766 561231010777 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 561231010778 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 561231010779 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231010780 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 561231010781 dimerization interface [polypeptide binding]; other site 561231010782 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231010783 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231010784 dimer interface [polypeptide binding]; other site 561231010785 putative CheW interface [polypeptide binding]; other site 561231010786 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 561231010787 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 561231010788 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561231010789 exoribonuclease R; Provisional; Region: PRK11642 561231010790 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 561231010791 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 561231010792 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 561231010793 RNB domain; Region: RNB; pfam00773 561231010794 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 561231010795 RNA binding site [nucleotide binding]; other site 561231010796 transcriptional repressor NsrR; Provisional; Region: PRK11014 561231010797 Rrf2 family protein; Region: rrf2_super; TIGR00738 561231010798 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561231010799 dimer interface [polypeptide binding]; other site 561231010800 ligand binding site [chemical binding]; other site 561231010801 HAMP domain; Region: HAMP; pfam00672 561231010802 dimerization interface [polypeptide binding]; other site 561231010803 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231010804 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231010805 dimer interface [polypeptide binding]; other site 561231010806 putative CheW interface [polypeptide binding]; other site 561231010807 PAS domain S-box; Region: sensory_box; TIGR00229 561231010808 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 561231010809 putative active site [active] 561231010810 heme pocket [chemical binding]; other site 561231010811 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 561231010812 PAS domain; Region: PAS_9; pfam13426 561231010813 putative active site [active] 561231010814 heme pocket [chemical binding]; other site 561231010815 GAF domain; Region: GAF_2; pfam13185 561231010816 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231010817 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231010818 metal binding site [ion binding]; metal-binding site 561231010819 active site 561231010820 I-site; other site 561231010821 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 561231010822 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 561231010823 Walker A motif; other site 561231010824 ATP binding site [chemical binding]; other site 561231010825 Walker B motif; other site 561231010826 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 561231010827 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561231010828 catalytic residue [active] 561231010829 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 561231010830 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 561231010831 YGGT family; Region: YGGT; pfam02325 561231010832 YGGT family; Region: YGGT; pfam02325 561231010833 hypothetical protein; Validated; Region: PRK05090 561231010834 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 561231010835 active site 561231010836 dimerization interface [polypeptide binding]; other site 561231010837 HemN family oxidoreductase; Provisional; Region: PRK05660 561231010838 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 561231010839 FeS/SAM binding site; other site 561231010840 HemN C-terminal domain; Region: HemN_C; pfam06969 561231010841 Predicted small secreted protein [Function unknown]; Region: COG5510 561231010842 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231010843 Coenzyme A binding pocket [chemical binding]; other site 561231010844 lysophospholipid transporter LplT; Provisional; Region: PRK11195 561231010845 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 561231010846 putative substrate translocation pore; other site 561231010847 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 561231010848 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 561231010849 putative acyl-acceptor binding pocket; other site 561231010850 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 561231010851 acyl-activating enzyme (AAE) consensus motif; other site 561231010852 putative AMP binding site [chemical binding]; other site 561231010853 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231010854 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561231010855 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 561231010856 dimerization interface [polypeptide binding]; other site 561231010857 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231010858 dimer interface [polypeptide binding]; other site 561231010859 putative CheW interface [polypeptide binding]; other site 561231010860 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 561231010861 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231010862 Coenzyme A binding pocket [chemical binding]; other site 561231010863 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561231010864 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231010865 DNA binding site [nucleotide binding] 561231010866 domain linker motif; other site 561231010867 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 561231010868 dimerization interface (closed form) [polypeptide binding]; other site 561231010869 ligand binding site [chemical binding]; other site 561231010870 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 561231010871 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 561231010872 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 561231010873 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 561231010874 pyruvate kinase; Provisional; Region: PRK05826 561231010875 domain interfaces; other site 561231010876 active site 561231010877 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 561231010878 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 561231010879 fructuronate transporter; Provisional; Region: PRK10034; cl15264 561231010880 diaminopimelate decarboxylase; Provisional; Region: PRK11165 561231010881 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 561231010882 active site 561231010883 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561231010884 substrate binding site [chemical binding]; other site 561231010885 catalytic residues [active] 561231010886 dimer interface [polypeptide binding]; other site 561231010887 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 561231010888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231010889 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 561231010890 dimerization interface [polypeptide binding]; other site 561231010891 transcriptional activator TtdR; Provisional; Region: PRK09801 561231010892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231010893 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561231010894 putative effector binding pocket; other site 561231010895 dimerization interface [polypeptide binding]; other site 561231010896 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 561231010897 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 561231010898 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 561231010899 catalytic residues [active] 561231010900 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 561231010901 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 561231010902 FMN binding site [chemical binding]; other site 561231010903 active site 561231010904 catalytic residues [active] 561231010905 substrate binding site [chemical binding]; other site 561231010906 phage shock protein G; Reviewed; Region: pspG; PRK09459 561231010907 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 561231010908 Cytochrome P450; Region: p450; cl12078 561231010909 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 561231010910 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 561231010911 NADP binding site [chemical binding]; other site 561231010912 dimer interface [polypeptide binding]; other site 561231010913 replicative DNA helicase; Provisional; Region: PRK08006 561231010914 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 561231010915 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 561231010916 Walker A motif; other site 561231010917 ATP binding site [chemical binding]; other site 561231010918 Walker B motif; other site 561231010919 DNA binding loops [nucleotide binding] 561231010920 alanine racemase; Reviewed; Region: alr; PRK00053 561231010921 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 561231010922 active site 561231010923 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561231010924 substrate binding site [chemical binding]; other site 561231010925 catalytic residues [active] 561231010926 dimer interface [polypeptide binding]; other site 561231010927 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 561231010928 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 561231010929 putative DNA binding site [nucleotide binding]; other site 561231010930 putative Zn2+ binding site [ion binding]; other site 561231010931 AsnC family; Region: AsnC_trans_reg; pfam01037 561231010932 Uncharacterized conserved protein [Function unknown]; Region: COG1284 561231010933 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 561231010934 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 561231010935 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 561231010936 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231010937 homodimer interface [polypeptide binding]; other site 561231010938 catalytic residue [active] 561231010939 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 561231010940 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561231010941 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 561231010942 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 561231010943 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 561231010944 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 561231010945 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 561231010946 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 561231010947 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 561231010948 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 561231010949 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 561231010950 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 561231010951 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09676 561231010952 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cd09735 561231010953 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 561231010954 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 561231010955 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-F; cd09718 561231010956 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 561231010957 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 561231010958 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 561231010959 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 561231010960 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 561231010961 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 561231010962 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 561231010963 dimer interface [polypeptide binding]; other site 561231010964 ssDNA binding site [nucleotide binding]; other site 561231010965 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561231010966 putative single-stranded DNA-binding protein; Region: PHA01740 561231010967 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 561231010968 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 561231010969 active site 561231010970 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231010971 Coenzyme A binding pocket [chemical binding]; other site 561231010972 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 561231010973 Uncharacterized conserved protein [Function unknown]; Region: COG2128 561231010974 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231010975 Coenzyme A binding pocket [chemical binding]; other site 561231010976 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 561231010977 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231010978 DNA-binding site [nucleotide binding]; DNA binding site 561231010979 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 561231010980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231010981 homodimer interface [polypeptide binding]; other site 561231010982 catalytic residue [active] 561231010983 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561231010984 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231010985 DNA binding site [nucleotide binding] 561231010986 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 561231010987 ligand binding site [chemical binding]; other site 561231010988 dimerization interface [polypeptide binding]; other site 561231010989 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561231010990 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 561231010991 dimer interface [polypeptide binding]; other site 561231010992 conserved gate region; other site 561231010993 putative PBP binding loops; other site 561231010994 ABC-ATPase subunit interface; other site 561231010995 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561231010996 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 561231010997 ABC-ATPase subunit interface; other site 561231010998 putative PBP binding loops; other site 561231010999 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561231011000 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561231011001 Walker A/P-loop; other site 561231011002 ATP binding site [chemical binding]; other site 561231011003 Q-loop/lid; other site 561231011004 ABC transporter signature motif; other site 561231011005 Walker B; other site 561231011006 D-loop; other site 561231011007 H-loop/switch region; other site 561231011008 TOBE domain; Region: TOBE_2; pfam08402 561231011009 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 561231011010 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561231011011 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 561231011012 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 561231011013 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561231011014 nucleotide binding site [chemical binding]; other site 561231011015 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 561231011016 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 561231011017 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 561231011018 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 561231011019 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561231011020 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 561231011021 ABC-ATPase subunit interface; other site 561231011022 dimer interface [polypeptide binding]; other site 561231011023 putative PBP binding regions; other site 561231011024 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 561231011025 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 561231011026 metal binding site [ion binding]; metal-binding site 561231011027 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 561231011028 substrate binding site [chemical binding]; other site 561231011029 activation loop (A-loop); other site 561231011030 Protein phosphatase 2C; Region: PP2C_2; pfam13672 561231011031 VWA subfamily: 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_subfamily; cd01464 561231011032 metal ion-dependent adhesion site (MIDAS); other site 561231011033 VWA subfamily: 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_subfamily; cd01464 561231011034 metal ion-dependent adhesion site (MIDAS); other site 561231011035 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 561231011036 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 561231011037 putative metal binding site [ion binding]; other site 561231011038 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 561231011039 metal ion-dependent adhesion site (MIDAS); other site 561231011040 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 561231011041 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 561231011042 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561231011043 active site 561231011044 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 561231011045 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 561231011046 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 561231011047 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 561231011048 putative metal binding site [ion binding]; other site 561231011049 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 561231011050 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 561231011051 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 561231011052 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 561231011053 putative metal binding site [ion binding]; other site 561231011054 tellurite resistance protein terB; Region: terB; cd07176 561231011055 putative metal binding site [ion binding]; other site 561231011056 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 561231011057 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 561231011058 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 561231011059 putative metal binding site [ion binding]; other site 561231011060 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 561231011061 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 561231011062 putative metal binding site [ion binding]; other site 561231011063 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 561231011064 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561231011065 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561231011066 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 561231011067 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561231011068 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 561231011069 Transcriptional regulator [Transcription]; Region: IclR; COG1414 561231011070 Bacterial transcriptional regulator; Region: IclR; pfam01614 561231011071 fructuronate transporter; Provisional; Region: PRK10034; cl15264 561231011072 gluconate transporter; Region: gntP; TIGR00791 561231011073 putative dehydratase; Provisional; Region: PRK08211 561231011074 Dehydratase family; Region: ILVD_EDD; cl00340 561231011075 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 561231011076 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 561231011077 inhibitor site; inhibition site 561231011078 active site 561231011079 dimer interface [polypeptide binding]; other site 561231011080 catalytic residue [active] 561231011081 4-hydroxythreonine-4-phosphate dehydrogenase 2; Provisional; Region: pdxA; PRK03371 561231011082 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 561231011083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 561231011084 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 561231011085 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 561231011086 putative active site [active] 561231011087 metal binding site [ion binding]; metal-binding site 561231011088 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 561231011089 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 561231011090 inhibitor site; inhibition site 561231011091 active site 561231011092 dimer interface [polypeptide binding]; other site 561231011093 catalytic residue [active] 561231011094 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 561231011095 Na binding site [ion binding]; other site 561231011096 BNR repeat-like domain; Region: BNR_2; pfam13088 561231011097 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 561231011098 Asp-box motif; other site 561231011099 Domain of unknown function (DUF386); Region: DUF386; cl01047 561231011100 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 561231011101 classical (c) SDRs; Region: SDR_c; cd05233 561231011102 NAD(P) binding site [chemical binding]; other site 561231011103 active site 561231011104 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 561231011105 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 561231011106 dimer interface [polypeptide binding]; other site 561231011107 active site 561231011108 glycine loop; other site 561231011109 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 561231011110 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 561231011111 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 561231011112 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 561231011113 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561231011114 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 561231011115 substrate binding site [chemical binding]; other site 561231011116 dimer interface [polypeptide binding]; other site 561231011117 ATP binding site [chemical binding]; other site 561231011118 D-allose kinase; Provisional; Region: PRK09698 561231011119 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561231011120 nucleotide binding site [chemical binding]; other site 561231011121 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 561231011122 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 561231011123 substrate binding site [chemical binding]; other site 561231011124 hexamer interface [polypeptide binding]; other site 561231011125 metal binding site [ion binding]; metal-binding site 561231011126 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231011127 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561231011128 TM-ABC transporter signature motif; other site 561231011129 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231011130 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561231011131 TM-ABC transporter signature motif; other site 561231011132 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561231011133 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561231011134 Walker A/P-loop; other site 561231011135 ATP binding site [chemical binding]; other site 561231011136 Q-loop/lid; other site 561231011137 ABC transporter signature motif; other site 561231011138 Walker B; other site 561231011139 D-loop; other site 561231011140 H-loop/switch region; other site 561231011141 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561231011142 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 561231011143 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 561231011144 ligand binding site [chemical binding]; other site 561231011145 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561231011146 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 561231011147 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561231011148 hypothetical protein; Provisional; Region: PRK05248 561231011149 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 561231011150 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 561231011151 intersubunit interface [polypeptide binding]; other site 561231011152 enterobactin exporter EntS; Provisional; Region: PRK10489 561231011153 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 561231011154 putative substrate translocation pore; other site 561231011155 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 561231011156 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 561231011157 ABC-ATPase subunit interface; other site 561231011158 dimer interface [polypeptide binding]; other site 561231011159 putative PBP binding regions; other site 561231011160 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 561231011161 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 561231011162 ABC-ATPase subunit interface; other site 561231011163 dimer interface [polypeptide binding]; other site 561231011164 putative PBP binding regions; other site 561231011165 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561231011166 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561231011167 Walker A/P-loop; other site 561231011168 ATP binding site [chemical binding]; other site 561231011169 Q-loop/lid; other site 561231011170 ABC transporter signature motif; other site 561231011171 Walker B; other site 561231011172 D-loop; other site 561231011173 H-loop/switch region; other site 561231011174 Condensation domain; Region: Condensation; pfam00668 561231011175 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 561231011176 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 561231011177 acyl-activating enzyme (AAE) consensus motif; other site 561231011178 AMP binding site [chemical binding]; other site 561231011179 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561231011180 Condensation domain; Region: Condensation; pfam00668 561231011181 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 561231011182 Condensation domain; Region: Condensation; pfam00668 561231011183 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 561231011184 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 561231011185 acyl-activating enzyme (AAE) consensus motif; other site 561231011186 AMP binding site [chemical binding]; other site 561231011187 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561231011188 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 561231011189 MbtH-like protein; Region: MbtH; cl01279 561231011190 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 561231011191 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 561231011192 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 561231011193 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 561231011194 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 561231011195 N-terminal plug; other site 561231011196 ligand-binding site [chemical binding]; other site 561231011197 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 561231011198 hydrophobic substrate binding pocket; other site 561231011199 Isochorismatase family; Region: Isochorismatase; pfam00857 561231011200 active site 561231011201 conserved cis-peptide bond; other site 561231011202 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 561231011203 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 561231011204 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 561231011205 substrate binding site [chemical binding]; other site 561231011206 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 561231011207 substrate binding site [chemical binding]; other site 561231011208 ligand binding site [chemical binding]; other site 561231011209 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 561231011210 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 561231011211 hypothetical protein; Reviewed; Region: PRK09588 561231011212 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 561231011213 dimerization interface [polypeptide binding]; other site 561231011214 putative DNA binding site [nucleotide binding]; other site 561231011215 putative Zn2+ binding site [ion binding]; other site 561231011216 outer membrane receptor FepA; Provisional; Region: PRK13524 561231011217 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 561231011218 N-terminal plug; other site 561231011219 ligand-binding site [chemical binding]; other site 561231011220 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231011221 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231011222 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 561231011223 Abhydrolase family; Region: Abhydrolase_7; pfam12715 561231011224 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561231011225 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561231011226 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 561231011227 putative substrate translocation pore; other site 561231011228 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 561231011229 Beta-lactamase; Region: Beta-lactamase; pfam00144 561231011230 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231011231 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231011232 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 561231011233 putative dimerization interface [polypeptide binding]; other site 561231011234 putative effector binding pocket; other site 561231011235 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 561231011236 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561231011237 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231011238 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 561231011239 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 561231011240 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 561231011241 E3 interaction surface; other site 561231011242 lipoyl attachment site [posttranslational modification]; other site 561231011243 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 561231011244 E3 interaction surface; other site 561231011245 lipoyl attachment site [posttranslational modification]; other site 561231011246 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 561231011247 E3 interaction surface; other site 561231011248 lipoyl attachment site [posttranslational modification]; other site 561231011249 e3 binding domain; Region: E3_binding; pfam02817 561231011250 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 561231011251 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 561231011252 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 561231011253 dimer interface [polypeptide binding]; other site 561231011254 TPP-binding site [chemical binding]; other site 561231011255 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 561231011256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231011257 DNA-binding site [nucleotide binding]; DNA binding site 561231011258 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 561231011259 aromatic amino acid transporter; Provisional; Region: PRK10238 561231011260 regulatory protein AmpE; Provisional; Region: PRK10987 561231011261 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 561231011262 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 561231011263 amidase catalytic site [active] 561231011264 Zn binding residues [ion binding]; other site 561231011265 substrate binding site [chemical binding]; other site 561231011266 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 561231011267 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 561231011268 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 561231011269 dimerization interface [polypeptide binding]; other site 561231011270 active site 561231011271 putative major pilin subunit; Provisional; Region: PRK10574 561231011272 Pilin (bacterial filament); Region: Pilin; pfam00114 561231011273 hypothetical protein; Provisional; Region: PRK10436 561231011274 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 561231011275 Walker A motif; other site 561231011276 ATP binding site [chemical binding]; other site 561231011277 Walker B motif; other site 561231011278 type IV pilin biogenesis protein; Provisional; Region: PRK10573 561231011279 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561231011280 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561231011281 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 561231011282 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 561231011283 active site 561231011284 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 561231011285 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 561231011286 CoA-binding site [chemical binding]; other site 561231011287 ATP-binding [chemical binding]; other site 561231011288 hypothetical protein; Provisional; Region: PRK05287 561231011289 Domain of unknown function (DUF329); Region: DUF329; cl01144 561231011290 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 561231011291 active site 561231011292 8-oxo-dGMP binding site [chemical binding]; other site 561231011293 nudix motif; other site 561231011294 metal binding site [ion binding]; metal-binding site 561231011295 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 561231011296 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 561231011297 SEC-C motif; Region: SEC-C; pfam02810 561231011298 SecA regulator SecM; Provisional; Region: PRK02943 561231011299 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4701 561231011300 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 561231011301 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 561231011302 cell division protein FtsZ; Validated; Region: PRK09330 561231011303 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 561231011304 nucleotide binding site [chemical binding]; other site 561231011305 SulA interaction site; other site 561231011306 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 561231011307 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561231011308 Cell division protein FtsA; Region: FtsA; pfam14450 561231011309 cell division protein FtsQ; Provisional; Region: PRK10775 561231011310 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 561231011311 Cell division protein FtsQ; Region: FtsQ; pfam03799 561231011312 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 561231011313 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 561231011314 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 561231011315 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 561231011316 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561231011317 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561231011318 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561231011319 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 561231011320 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 561231011321 active site 561231011322 homodimer interface [polypeptide binding]; other site 561231011323 cell division protein FtsW; Provisional; Region: PRK10774 561231011324 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 561231011325 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 561231011326 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561231011327 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 561231011328 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 561231011329 Mg++ binding site [ion binding]; other site 561231011330 putative catalytic motif [active] 561231011331 putative substrate binding site [chemical binding]; other site 561231011332 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 561231011333 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561231011334 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561231011335 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561231011336 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 561231011337 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561231011338 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561231011339 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561231011340 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 561231011341 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 561231011342 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 561231011343 cell division protein FtsL; Provisional; Region: PRK10772 561231011344 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 561231011345 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 561231011346 cell division protein MraZ; Reviewed; Region: PRK00326 561231011347 MraZ protein; Region: MraZ; pfam02381 561231011348 MraZ protein; Region: MraZ; pfam02381 561231011349 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 561231011350 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 561231011351 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231011352 DNA binding site [nucleotide binding] 561231011353 domain linker motif; other site 561231011354 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 561231011355 dimerization interface [polypeptide binding]; other site 561231011356 ligand binding site [chemical binding]; other site 561231011357 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 561231011358 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 561231011359 putative valine binding site [chemical binding]; other site 561231011360 dimer interface [polypeptide binding]; other site 561231011361 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 561231011362 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 561231011363 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561231011364 PYR/PP interface [polypeptide binding]; other site 561231011365 dimer interface [polypeptide binding]; other site 561231011366 TPP binding site [chemical binding]; other site 561231011367 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561231011368 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 561231011369 TPP-binding site [chemical binding]; other site 561231011370 dimer interface [polypeptide binding]; other site 561231011371 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 561231011372 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561231011373 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 561231011374 acyl-activating enzyme (AAE) consensus motif; other site 561231011375 putative AMP binding site [chemical binding]; other site 561231011376 putative active site [active] 561231011377 putative CoA binding site [chemical binding]; other site 561231011378 2-isopropylmalate synthase; Validated; Region: PRK00915 561231011379 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 561231011380 active site 561231011381 catalytic residues [active] 561231011382 metal binding site [ion binding]; metal-binding site 561231011383 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 561231011384 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 561231011385 tartrate dehydrogenase; Region: TTC; TIGR02089 561231011386 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 561231011387 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 561231011388 substrate binding site [chemical binding]; other site 561231011389 ligand binding site [chemical binding]; other site 561231011390 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 561231011391 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 561231011392 substrate binding site [chemical binding]; other site 561231011393 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 561231011394 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 561231011395 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561231011396 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231011397 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231011398 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561231011399 dimer interface [polypeptide binding]; other site 561231011400 ligand binding site [chemical binding]; other site 561231011401 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 561231011402 dimerization interface [polypeptide binding]; other site 561231011403 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231011404 dimer interface [polypeptide binding]; other site 561231011405 putative CheW interface [polypeptide binding]; other site 561231011406 transcriptional regulator SgrR; Provisional; Region: PRK13626 561231011407 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 561231011408 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 561231011409 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 561231011410 NmrA-like family; Region: NmrA; pfam05368 561231011411 NAD(P) binding site [chemical binding]; other site 561231011412 active site lysine 561231011413 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231011414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231011415 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 561231011416 putative effector binding pocket; other site 561231011417 putative dimerization interface [polypeptide binding]; other site 561231011418 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 561231011419 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 561231011420 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 561231011421 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 561231011422 dimer interface [polypeptide binding]; other site 561231011423 conserved gate region; other site 561231011424 putative PBP binding loops; other site 561231011425 ABC-ATPase subunit interface; other site 561231011426 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 561231011427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231011428 Walker A/P-loop; other site 561231011429 ATP binding site [chemical binding]; other site 561231011430 Q-loop/lid; other site 561231011431 ABC transporter signature motif; other site 561231011432 Walker B; other site 561231011433 D-loop; other site 561231011434 H-loop/switch region; other site 561231011435 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 561231011436 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_3; cd09002 561231011437 active site 561231011438 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 561231011439 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561231011440 PYR/PP interface [polypeptide binding]; other site 561231011441 dimer interface [polypeptide binding]; other site 561231011442 TPP binding site [chemical binding]; other site 561231011443 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561231011444 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 561231011445 TPP-binding site [chemical binding]; other site 561231011446 dimer interface [polypeptide binding]; other site 561231011447 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 561231011448 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 561231011449 putative valine binding site [chemical binding]; other site 561231011450 dimer interface [polypeptide binding]; other site 561231011451 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561231011452 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 561231011453 Cache domain; Region: Cache_1; pfam02743 561231011454 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231011455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231011456 metal binding site [ion binding]; metal-binding site 561231011457 active site 561231011458 I-site; other site 561231011459 DNA polymerase II; Reviewed; Region: PRK05762 561231011460 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 561231011461 active site 561231011462 catalytic site [active] 561231011463 substrate binding site [chemical binding]; other site 561231011464 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 561231011465 active site 561231011466 metal-binding site 561231011467 ATP-dependent helicase HepA; Validated; Region: PRK04914 561231011468 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 561231011469 ATP binding site [chemical binding]; other site 561231011470 putative Mg++ binding site [ion binding]; other site 561231011471 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 561231011472 nucleotide binding region [chemical binding]; other site 561231011473 ATP-binding site [chemical binding]; other site 561231011474 PAAR motif; Region: PAAR_motif; pfam05488 561231011475 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 561231011476 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 561231011477 active site 561231011478 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 561231011479 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 561231011480 putative metal binding site [ion binding]; other site 561231011481 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 561231011482 HSP70 interaction site [polypeptide binding]; other site 561231011483 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 561231011484 OstA-like protein; Region: OstA; pfam03968 561231011485 Organic solvent tolerance protein; Region: OstA_C; pfam04453 561231011486 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 561231011487 SurA N-terminal domain; Region: SurA_N; pfam09312 561231011488 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 561231011489 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 561231011490 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 561231011491 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 561231011492 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 561231011493 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 561231011494 S-adenosylmethionine binding site [chemical binding]; other site 561231011495 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 561231011496 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 561231011497 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 561231011498 active site 561231011499 metal binding site [ion binding]; metal-binding site 561231011500 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 561231011501 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 561231011502 folate binding site [chemical binding]; other site 561231011503 NADP+ binding site [chemical binding]; other site 561231011504 hypothetical protein; Provisional; Region: PRK09917 561231011505 Uncharacterized conserved protein [Function unknown]; Region: COG2966 561231011506 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 561231011507 LysE type translocator; Region: LysE; cl00565 561231011508 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 561231011509 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561231011510 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 561231011511 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 561231011512 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561231011513 ATP-grasp domain; Region: ATP-grasp_4; cl17255 561231011514 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 561231011515 IMP binding site; other site 561231011516 dimer interface [polypeptide binding]; other site 561231011517 interdomain contacts; other site 561231011518 partial ornithine binding site; other site 561231011519 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 561231011520 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 561231011521 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 561231011522 catalytic site [active] 561231011523 subunit interface [polypeptide binding]; other site 561231011524 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 561231011525 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 561231011526 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 561231011527 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 561231011528 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 561231011529 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 561231011530 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561231011531 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 561231011532 lipoprotein signal peptidase; Provisional; Region: PRK14787 561231011533 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 561231011534 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 561231011535 active site 561231011536 HIGH motif; other site 561231011537 nucleotide binding site [chemical binding]; other site 561231011538 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 561231011539 active site 561231011540 KMSKS motif; other site 561231011541 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 561231011542 tRNA binding surface [nucleotide binding]; other site 561231011543 anticodon binding site; other site 561231011544 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 561231011545 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 561231011546 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 561231011547 active site 561231011548 Riboflavin kinase; Region: Flavokinase; smart00904 561231011549 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 561231011550 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 561231011551 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231011552 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 561231011553 putative dimerization interface [polypeptide binding]; other site 561231011554 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 561231011555 chaperone protein DnaJ; Provisional; Region: PRK10767 561231011556 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 561231011557 HSP70 interaction site [polypeptide binding]; other site 561231011558 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 561231011559 substrate binding site [polypeptide binding]; other site 561231011560 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 561231011561 Zn binding sites [ion binding]; other site 561231011562 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 561231011563 dimer interface [polypeptide binding]; other site 561231011564 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 561231011565 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 561231011566 nucleotide binding site [chemical binding]; other site 561231011567 hypothetical protein; Provisional; Region: PRK10659 561231011568 metabolite-proton symporter; Region: 2A0106; TIGR00883 561231011569 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 561231011570 putative substrate translocation pore; other site 561231011571 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 561231011572 MPT binding site; other site 561231011573 trimer interface [polypeptide binding]; other site 561231011574 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231011575 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231011576 metal binding site [ion binding]; metal-binding site 561231011577 active site 561231011578 I-site; other site 561231011579 transaldolase-like protein; Provisional; Region: PTZ00411 561231011580 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 561231011581 active site 561231011582 dimer interface [polypeptide binding]; other site 561231011583 catalytic residue [active] 561231011584 hypothetical protein; Validated; Region: PRK02101 561231011585 threonine synthase; Validated; Region: PRK09225 561231011586 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 561231011587 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561231011588 catalytic residue [active] 561231011589 homoserine kinase; Provisional; Region: PRK01212 561231011590 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 561231011591 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 561231011592 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 561231011593 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 561231011594 putative catalytic residues [active] 561231011595 putative nucleotide binding site [chemical binding]; other site 561231011596 putative aspartate binding site [chemical binding]; other site 561231011597 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 561231011598 dimer interface [polypeptide binding]; other site 561231011599 putative threonine allosteric regulatory site; other site 561231011600 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 561231011601 putative threonine allosteric regulatory site; other site 561231011602 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 561231011603 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 561231011604 putative RNA methyltransferase; Provisional; Region: PRK10433 561231011605 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 561231011606 two-component response regulator; Provisional; Region: PRK11173 561231011607 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 561231011608 active site 561231011609 phosphorylation site [posttranslational modification] 561231011610 intermolecular recognition site; other site 561231011611 dimerization interface [polypeptide binding]; other site 561231011612 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 561231011613 DNA binding site [nucleotide binding] 561231011614 hypothetical protein; Provisional; Region: PRK10756 561231011615 CreA protein; Region: CreA; pfam05981 561231011616 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 561231011617 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231011618 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 561231011619 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 561231011620 catalytic core [active] 561231011621 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 561231011622 Trp operon repressor; Provisional; Region: PRK01381 561231011623 lytic murein transglycosylase; Provisional; Region: PRK11619 561231011624 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 561231011625 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561231011626 catalytic residue [active] 561231011627 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 561231011628 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561231011629 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561231011630 ABC transporter; Region: ABC_tran_2; pfam12848 561231011631 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561231011632 Tar ligand binding domain homologue; Region: TarH; pfam02203 561231011633 dimer interface [polypeptide binding]; other site 561231011634 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 561231011635 dimerization interface [polypeptide binding]; other site 561231011636 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231011637 dimer interface [polypeptide binding]; other site 561231011638 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561231011639 putative CheW interface [polypeptide binding]; other site 561231011640 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 561231011641 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 561231011642 putative NAD(P) binding site [chemical binding]; other site 561231011643 dimer interface [polypeptide binding]; other site 561231011644 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 561231011645 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 561231011646 ligand binding site [chemical binding]; other site 561231011647 NAD binding site [chemical binding]; other site 561231011648 tetramer interface [polypeptide binding]; other site 561231011649 catalytic site [active] 561231011650 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 561231011651 L-serine binding site [chemical binding]; other site 561231011652 ACT domain interface; other site 561231011653 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 561231011654 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561231011655 active site 561231011656 dimer interface [polypeptide binding]; other site 561231011657 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 561231011658 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231011659 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 561231011660 putative dimerization interface [polypeptide binding]; other site 561231011661 Uncharacterized conserved protein [Function unknown]; Region: COG2968 561231011662 oxidative stress defense protein; Provisional; Region: PRK11087 561231011663 arginine exporter protein; Provisional; Region: PRK09304 561231011664 Transcriptional regulator [Transcription]; Region: IclR; COG1414 561231011665 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 561231011666 Bacterial transcriptional regulator; Region: IclR; pfam01614 561231011667 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561231011668 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561231011669 Walker A/P-loop; other site 561231011670 ATP binding site [chemical binding]; other site 561231011671 Q-loop/lid; other site 561231011672 ABC transporter signature motif; other site 561231011673 Walker B; other site 561231011674 D-loop; other site 561231011675 H-loop/switch region; other site 561231011676 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561231011677 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561231011678 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231011679 TM-ABC transporter signature motif; other site 561231011680 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 561231011681 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 561231011682 putative ligand binding site [chemical binding]; other site 561231011683 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 561231011684 Strictosidine synthase; Region: Str_synth; pfam03088 561231011685 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 561231011686 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 561231011687 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 561231011688 D-galactonate transporter; Region: 2A0114; TIGR00893 561231011689 putative substrate translocation pore; other site 561231011690 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 561231011691 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 561231011692 putative N- and C-terminal domain interface [polypeptide binding]; other site 561231011693 putative active site [active] 561231011694 MgATP binding site [chemical binding]; other site 561231011695 catalytic site [active] 561231011696 metal binding site [ion binding]; metal-binding site 561231011697 putative xylulose binding site [chemical binding]; other site 561231011698 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 561231011699 active site 561231011700 dimer interface [polypeptide binding]; other site 561231011701 magnesium binding site [ion binding]; other site 561231011702 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 561231011703 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; cd00019 561231011704 AP (apurinic/apyrimidinic) site pocket; other site 561231011705 DNA interaction; other site 561231011706 Metal-binding active site; metal-binding site 561231011707 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 561231011708 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; cd00398 561231011709 intersubunit interface [polypeptide binding]; other site 561231011710 active site 561231011711 Zn2+ binding site [ion binding]; other site 561231011712 mechanosensitive channel MscS; Provisional; Region: PRK10334 561231011713 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561231011714 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 561231011715 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 561231011716 active site 561231011717 intersubunit interface [polypeptide binding]; other site 561231011718 zinc binding site [ion binding]; other site 561231011719 Na+ binding site [ion binding]; other site 561231011720 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 561231011721 Phosphoglycerate kinase; Region: PGK; pfam00162 561231011722 substrate binding site [chemical binding]; other site 561231011723 hinge regions; other site 561231011724 ADP binding site [chemical binding]; other site 561231011725 catalytic site [active] 561231011726 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 561231011727 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 561231011728 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 561231011729 transketolase; Reviewed; Region: PRK12753 561231011730 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 561231011731 TPP-binding site [chemical binding]; other site 561231011732 dimer interface [polypeptide binding]; other site 561231011733 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 561231011734 PYR/PP interface [polypeptide binding]; other site 561231011735 dimer interface [polypeptide binding]; other site 561231011736 TPP binding site [chemical binding]; other site 561231011737 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 561231011738 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 561231011739 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 561231011740 DNA binding residues [nucleotide binding] 561231011741 dimerization interface [polypeptide binding]; other site 561231011742 arginine decarboxylase; Provisional; Region: PRK05354 561231011743 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 561231011744 dimer interface [polypeptide binding]; other site 561231011745 active site 561231011746 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561231011747 catalytic residues [active] 561231011748 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 561231011749 S-adenosylmethionine synthetase; Validated; Region: PRK05250 561231011750 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 561231011751 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 561231011752 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 561231011753 hypothetical protein; Provisional; Region: PRK04860 561231011754 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 561231011755 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 561231011756 DNA-specific endonuclease I; Provisional; Region: PRK15137 561231011757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 561231011758 RNA methyltransferase, RsmE family; Region: TIGR00046 561231011759 glutathione synthetase; Provisional; Region: PRK05246 561231011760 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 561231011761 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 561231011762 hypothetical protein; Validated; Region: PRK00228 561231011763 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 561231011764 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 561231011765 AMP binding site [chemical binding]; other site 561231011766 metal binding site [ion binding]; metal-binding site 561231011767 active site 561231011768 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 561231011769 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561231011770 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561231011771 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561231011772 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 561231011773 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 561231011774 GDP-binding site [chemical binding]; other site 561231011775 ACT binding site; other site 561231011776 IMP binding site; other site 561231011777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 561231011778 FtsH protease regulator HflC; Provisional; Region: PRK11029 561231011779 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 561231011780 FtsH protease regulator HflK; Provisional; Region: PRK10930 561231011781 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 561231011782 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 561231011783 GTPase HflX; Provisional; Region: PRK11058 561231011784 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 561231011785 HflX GTPase family; Region: HflX; cd01878 561231011786 G1 box; other site 561231011787 GTP/Mg2+ binding site [chemical binding]; other site 561231011788 Switch I region; other site 561231011789 G2 box; other site 561231011790 G3 box; other site 561231011791 Switch II region; other site 561231011792 G4 box; other site 561231011793 G5 box; other site 561231011794 bacterial Hfq-like; Region: Hfq; cd01716 561231011795 hexamer interface [polypeptide binding]; other site 561231011796 Sm1 motif; other site 561231011797 RNA binding site [nucleotide binding]; other site 561231011798 Sm2 motif; other site 561231011799 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 561231011800 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 561231011801 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 561231011802 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 561231011803 ATP binding site [chemical binding]; other site 561231011804 Mg2+ binding site [ion binding]; other site 561231011805 G-X-G motif; other site 561231011806 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 561231011807 ATP binding site [chemical binding]; other site 561231011808 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 561231011809 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 561231011810 AMIN domain; Region: AMIN; pfam11741 561231011811 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 561231011812 active site 561231011813 metal binding site [ion binding]; metal-binding site 561231011814 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561231011815 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 561231011816 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561231011817 ADP-binding protein; Provisional; Region: PRK10646 561231011818 putative carbohydrate kinase; Provisional; Region: PRK10565 561231011819 Uncharacterized conserved protein [Function unknown]; Region: COG0062 561231011820 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 561231011821 putative substrate binding site [chemical binding]; other site 561231011822 putative ATP binding site [chemical binding]; other site 561231011823 epoxyqueuosine reductase; Region: TIGR00276 561231011824 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 561231011825 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 561231011826 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 561231011827 catalytic residue [active] 561231011828 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 561231011829 catalytic residues [active] 561231011830 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561231011831 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231011832 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 561231011833 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 561231011834 dimer interface [polypeptide binding]; other site 561231011835 decamer (pentamer of dimers) interface [polypeptide binding]; other site 561231011836 catalytic triad [active] 561231011837 peroxidatic and resolving cysteines [active] 561231011838 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 561231011839 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 561231011840 active site 561231011841 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 561231011842 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 561231011843 Autotransporter beta-domain; Region: Autotransporter; pfam03797 561231011844 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 561231011845 catalytic site [active] 561231011846 putative active site [active] 561231011847 putative substrate binding site [chemical binding]; other site 561231011848 dimer interface [polypeptide binding]; other site 561231011849 GTPase RsgA; Reviewed; Region: PRK12288 561231011850 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 561231011851 RNA binding site [nucleotide binding]; other site 561231011852 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 561231011853 GTPase/Zn-binding domain interface [polypeptide binding]; other site 561231011854 GTP/Mg2+ binding site [chemical binding]; other site 561231011855 G4 box; other site 561231011856 G5 box; other site 561231011857 G1 box; other site 561231011858 Switch I region; other site 561231011859 G2 box; other site 561231011860 G3 box; other site 561231011861 Switch II region; other site 561231011862 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 561231011863 putative mechanosensitive channel protein; Provisional; Region: PRK10929 561231011864 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 561231011865 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 561231011866 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561231011867 poxB regulator PoxA; Provisional; Region: PRK09350 561231011868 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 561231011869 motif 1; other site 561231011870 dimer interface [polypeptide binding]; other site 561231011871 active site 561231011872 motif 2; other site 561231011873 motif 3; other site 561231011874 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 561231011875 L-aspartate oxidase; Provisional; Region: PRK06175 561231011876 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 561231011877 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 561231011878 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 561231011879 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 561231011880 D-subunit interface [polypeptide binding]; other site 561231011881 Iron-sulfur protein interface; other site 561231011882 proximal quinone binding site [chemical binding]; other site 561231011883 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 561231011884 Iron-sulfur protein interface; other site 561231011885 proximal quinone binding site [chemical binding]; other site 561231011886 C-subunit interface; other site 561231011887 distal quinone binding site; other site 561231011888 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 561231011889 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 561231011890 Protein of unknown function, DUF486; Region: DUF486; cl01236 561231011891 Predicted small secreted protein [Function unknown]; Region: COG5510 561231011892 elongation factor P; Validated; Region: PRK00529 561231011893 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 561231011894 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 561231011895 RNA binding site [nucleotide binding]; other site 561231011896 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 561231011897 RNA binding site [nucleotide binding]; other site 561231011898 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 561231011899 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 561231011900 FeS/SAM binding site; other site 561231011901 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 561231011902 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 561231011903 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 561231011904 active site 561231011905 dimer interface [polypeptide binding]; other site 561231011906 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 561231011907 dimer interface [polypeptide binding]; other site 561231011908 active site 561231011909 aspartate kinase III; Validated; Region: PRK09084 561231011910 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 561231011911 nucleotide binding site [chemical binding]; other site 561231011912 substrate binding site [chemical binding]; other site 561231011913 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 561231011914 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 561231011915 dimer interface [polypeptide binding]; other site 561231011916 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 561231011917 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 561231011918 PhoU domain; Region: PhoU; pfam01895 561231011919 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 561231011920 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 561231011921 transmembrane helices; other site 561231011922 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 561231011923 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 561231011924 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 561231011925 substrate binding pocket [chemical binding]; other site 561231011926 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 561231011927 B12 binding site [chemical binding]; other site 561231011928 cobalt ligand [ion binding]; other site 561231011929 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 561231011930 transcriptional repressor IclR; Provisional; Region: PRK11569 561231011931 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 561231011932 Bacterial transcriptional regulator; Region: IclR; pfam01614 561231011933 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 561231011934 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 561231011935 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 561231011936 putative acyl-acceptor binding pocket; other site 561231011937 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 561231011938 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 561231011939 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 561231011940 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 561231011941 isocitrate lyase; Provisional; Region: PRK15063 561231011942 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 561231011943 tetramer interface [polypeptide binding]; other site 561231011944 active site 561231011945 Mg2+/Mn2+ binding site [ion binding]; other site 561231011946 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 561231011947 malate synthase A; Region: malate_syn_A; TIGR01344 561231011948 active site 561231011949 homoserine O-succinyltransferase; Provisional; Region: PRK05368 561231011950 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 561231011951 proposed active site lysine [active] 561231011952 conserved cys residue [active] 561231011953 hypothetical protein; Provisional; Region: PRK10039 561231011954 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 561231011955 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 561231011956 trimer interface [polypeptide binding]; other site 561231011957 putative metal binding site [ion binding]; other site 561231011958 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 561231011959 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 561231011960 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 561231011961 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 561231011962 shikimate binding site; other site 561231011963 NAD(P) binding site [chemical binding]; other site 561231011964 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 561231011965 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561231011966 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 561231011967 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561231011968 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561231011969 hypothetical protein; Validated; Region: PRK03430 561231011970 hypothetical protein; Provisional; Region: PRK10736 561231011971 DNA protecting protein DprA; Region: dprA; TIGR00732 561231011972 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 561231011973 active site 561231011974 catalytic residues [active] 561231011975 metal binding site [ion binding]; metal-binding site 561231011976 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 561231011977 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 561231011978 putative active site [active] 561231011979 substrate binding site [chemical binding]; other site 561231011980 putative cosubstrate binding site; other site 561231011981 catalytic site [active] 561231011982 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 561231011983 substrate binding site [chemical binding]; other site 561231011984 16S rRNA methyltransferase B; Provisional; Region: PRK10901 561231011985 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 561231011986 putative RNA binding site [nucleotide binding]; other site 561231011987 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 561231011988 S-adenosylmethionine binding site [chemical binding]; other site 561231011989 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 561231011990 TrkA-N domain; Region: TrkA_N; pfam02254 561231011991 TrkA-C domain; Region: TrkA_C; pfam02080 561231011992 TrkA-N domain; Region: TrkA_N; pfam02254 561231011993 TrkA-C domain; Region: TrkA_C; pfam02080 561231011994 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 561231011995 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 561231011996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 561231011997 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 561231011998 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 561231011999 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 561231012000 alphaNTD homodimer interface [polypeptide binding]; other site 561231012001 alphaNTD - beta interaction site [polypeptide binding]; other site 561231012002 alphaNTD - beta' interaction site [polypeptide binding]; other site 561231012003 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 561231012004 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 561231012005 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 561231012006 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 561231012007 RNA binding surface [nucleotide binding]; other site 561231012008 30S ribosomal protein S11; Validated; Region: PRK05309 561231012009 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 561231012010 30S ribosomal protein S13; Region: bact_S13; TIGR03631 561231012011 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 561231012012 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 561231012013 SecY translocase; Region: SecY; pfam00344 561231012014 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 561231012015 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 561231012016 23S rRNA binding site [nucleotide binding]; other site 561231012017 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 561231012018 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 561231012019 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 561231012020 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 561231012021 5S rRNA interface [nucleotide binding]; other site 561231012022 23S rRNA interface [nucleotide binding]; other site 561231012023 L5 interface [polypeptide binding]; other site 561231012024 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 561231012025 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 561231012026 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 561231012027 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 561231012028 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 561231012029 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 561231012030 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 561231012031 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 561231012032 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 561231012033 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 561231012034 RNA binding site [nucleotide binding]; other site 561231012035 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 561231012036 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 561231012037 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 561231012038 23S rRNA interface [nucleotide binding]; other site 561231012039 putative translocon interaction site; other site 561231012040 signal recognition particle (SRP54) interaction site; other site 561231012041 L23 interface [polypeptide binding]; other site 561231012042 trigger factor interaction site; other site 561231012043 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 561231012044 23S rRNA interface [nucleotide binding]; other site 561231012045 5S rRNA interface [nucleotide binding]; other site 561231012046 putative antibiotic binding site [chemical binding]; other site 561231012047 L25 interface [polypeptide binding]; other site 561231012048 L27 interface [polypeptide binding]; other site 561231012049 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 561231012050 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 561231012051 G-X-X-G motif; other site 561231012052 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 561231012053 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 561231012054 protein-rRNA interface [nucleotide binding]; other site 561231012055 putative translocon binding site; other site 561231012056 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 561231012057 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 561231012058 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 561231012059 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 561231012060 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 561231012061 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 561231012062 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 561231012063 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 561231012064 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 561231012065 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 561231012066 heme binding site [chemical binding]; other site 561231012067 ferroxidase pore; other site 561231012068 ferroxidase diiron center [ion binding]; other site 561231012069 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 561231012070 elongation factor Tu; Reviewed; Region: PRK00049 561231012071 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 561231012072 G1 box; other site 561231012073 GEF interaction site [polypeptide binding]; other site 561231012074 GTP/Mg2+ binding site [chemical binding]; other site 561231012075 Switch I region; other site 561231012076 G2 box; other site 561231012077 G3 box; other site 561231012078 Switch II region; other site 561231012079 G4 box; other site 561231012080 G5 box; other site 561231012081 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 561231012082 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 561231012083 Antibiotic Binding Site [chemical binding]; other site 561231012084 elongation factor G; Reviewed; Region: PRK00007 561231012085 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 561231012086 G1 box; other site 561231012087 putative GEF interaction site [polypeptide binding]; other site 561231012088 GTP/Mg2+ binding site [chemical binding]; other site 561231012089 Switch I region; other site 561231012090 G2 box; other site 561231012091 G3 box; other site 561231012092 Switch II region; other site 561231012093 G4 box; other site 561231012094 G5 box; other site 561231012095 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 561231012096 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 561231012097 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 561231012098 30S ribosomal protein S7; Validated; Region: PRK05302 561231012099 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 561231012100 S17 interaction site [polypeptide binding]; other site 561231012101 S8 interaction site; other site 561231012102 16S rRNA interaction site [nucleotide binding]; other site 561231012103 streptomycin interaction site [chemical binding]; other site 561231012104 23S rRNA interaction site [nucleotide binding]; other site 561231012105 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 561231012106 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 561231012107 sulfur relay protein TusC; Validated; Region: PRK00211 561231012108 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 561231012109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 561231012110 YheO-like PAS domain; Region: PAS_6; pfam08348 561231012111 HTH domain; Region: HTH_22; pfam13309 561231012112 putative metal dependent hydrolase; Provisional; Region: PRK11598 561231012113 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 561231012114 Sulfatase; Region: Sulfatase; pfam00884 561231012115 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 561231012116 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 561231012117 active site 561231012118 phosphorylation site [posttranslational modification] 561231012119 intermolecular recognition site; other site 561231012120 dimerization interface [polypeptide binding]; other site 561231012121 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 561231012122 DNA binding site [nucleotide binding] 561231012123 sensor protein BasS/PmrB; Provisional; Region: PRK10755 561231012124 HAMP domain; Region: HAMP; pfam00672 561231012125 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 561231012126 dimer interface [polypeptide binding]; other site 561231012127 phosphorylation site [posttranslational modification] 561231012128 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 561231012129 ATP binding site [chemical binding]; other site 561231012130 Mg2+ binding site [ion binding]; other site 561231012131 G-X-G motif; other site 561231012132 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 561231012133 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 561231012134 dimer interface [polypeptide binding]; other site 561231012135 active site 561231012136 glycine-pyridoxal phosphate binding site [chemical binding]; other site 561231012137 folate binding site [chemical binding]; other site 561231012138 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 561231012139 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561231012140 catalytic residue [active] 561231012141 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 561231012142 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231012143 DNA-binding site [nucleotide binding]; DNA binding site 561231012144 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 561231012145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231012146 homodimer interface [polypeptide binding]; other site 561231012147 catalytic residue [active] 561231012148 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 561231012149 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 561231012150 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561231012151 phi X174 lysis protein; Provisional; Region: PRK02793 561231012152 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 561231012153 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561231012154 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 561231012155 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 561231012156 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 561231012157 TrkA-N domain; Region: TrkA_N; pfam02254 561231012158 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 561231012159 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 561231012160 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231012161 Walker A/P-loop; other site 561231012162 ATP binding site [chemical binding]; other site 561231012163 Q-loop/lid; other site 561231012164 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561231012165 ABC transporter signature motif; other site 561231012166 Walker B; other site 561231012167 D-loop; other site 561231012168 ABC transporter; Region: ABC_tran_2; pfam12848 561231012169 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561231012170 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561231012171 putative hydrolase; Provisional; Region: PRK10985 561231012172 hypothetical protein; Provisional; Region: PRK04966 561231012173 phosphoribulokinase; Provisional; Region: PRK15453 561231012174 active site 561231012175 hypothetical protein; Provisional; Region: PRK10738 561231012176 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 561231012177 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 561231012178 ligand binding site [chemical binding]; other site 561231012179 flexible hinge region; other site 561231012180 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 561231012181 putative switch regulator; other site 561231012182 non-specific DNA interactions [nucleotide binding]; other site 561231012183 DNA binding site [nucleotide binding] 561231012184 sequence specific DNA binding site [nucleotide binding]; other site 561231012185 putative cAMP binding site [chemical binding]; other site 561231012186 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 561231012187 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 561231012188 inhibitor-cofactor binding pocket; inhibition site 561231012189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231012190 catalytic residue [active] 561231012191 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 561231012192 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 561231012193 glutamine binding [chemical binding]; other site 561231012194 catalytic triad [active] 561231012195 Pectate lyase; Region: Pec_lyase_C; pfam00544 561231012196 Pectate lyase; Region: Pec_lyase_C; cl01593 561231012197 Pectate lyase; Region: Pec_lyase_C; pfam00544 561231012198 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 561231012199 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 561231012200 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 561231012201 substrate binding site [chemical binding]; other site 561231012202 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561231012203 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231012204 Walker A/P-loop; other site 561231012205 ATP binding site [chemical binding]; other site 561231012206 Q-loop/lid; other site 561231012207 ABC transporter signature motif; other site 561231012208 Walker B; other site 561231012209 D-loop; other site 561231012210 H-loop/switch region; other site 561231012211 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561231012212 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231012213 Walker A/P-loop; other site 561231012214 ATP binding site [chemical binding]; other site 561231012215 Q-loop/lid; other site 561231012216 ABC transporter signature motif; other site 561231012217 Walker B; other site 561231012218 D-loop; other site 561231012219 H-loop/switch region; other site 561231012220 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231012221 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 561231012222 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561231012223 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 561231012224 dimer interface [polypeptide binding]; other site 561231012225 conserved gate region; other site 561231012226 ABC-ATPase subunit interface; other site 561231012227 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561231012228 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 561231012229 dimer interface [polypeptide binding]; other site 561231012230 conserved gate region; other site 561231012231 putative PBP binding loops; other site 561231012232 ABC-ATPase subunit interface; other site 561231012233 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561231012234 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 561231012235 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 561231012236 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. 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...; Region: MR_like_4; cd03329 561231012237 putative active site pocket [active] 561231012238 metal binding site [ion binding]; metal-binding site 561231012239 nitrite reductase subunit NirD; Provisional; Region: PRK14989 561231012240 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231012241 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 561231012242 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 561231012243 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561231012244 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 561231012245 siroheme synthase; Provisional; Region: cysG; PRK10637 561231012246 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 561231012247 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 561231012248 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 561231012249 active site 561231012250 SAM binding site [chemical binding]; other site 561231012251 homodimer interface [polypeptide binding]; other site 561231012252 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231012253 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 561231012254 dimer interface [polypeptide binding]; other site 561231012255 conserved gate region; other site 561231012256 putative PBP binding loops; other site 561231012257 ABC-ATPase subunit interface; other site 561231012258 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231012259 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 561231012260 dimer interface [polypeptide binding]; other site 561231012261 conserved gate region; other site 561231012262 putative PBP binding loops; other site 561231012263 ABC-ATPase subunit interface; other site 561231012264 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 561231012265 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561231012266 Walker A/P-loop; other site 561231012267 ATP binding site [chemical binding]; other site 561231012268 Q-loop/lid; other site 561231012269 ABC transporter signature motif; other site 561231012270 Walker B; other site 561231012271 D-loop; other site 561231012272 H-loop/switch region; other site 561231012273 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561231012274 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231012275 substrate binding pocket [chemical binding]; other site 561231012276 membrane-bound complex binding site; other site 561231012277 hinge residues; other site 561231012278 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 561231012279 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 561231012280 putative metal binding site [ion binding]; other site 561231012281 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 561231012282 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 561231012283 active site 561231012284 HIGH motif; other site 561231012285 dimer interface [polypeptide binding]; other site 561231012286 KMSKS motif; other site 561231012287 phosphoglycolate phosphatase; Provisional; Region: PRK13222 561231012288 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561231012289 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 561231012290 motif II; other site 561231012291 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 561231012292 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 561231012293 substrate binding site [chemical binding]; other site 561231012294 hexamer interface [polypeptide binding]; other site 561231012295 metal binding site [ion binding]; metal-binding site 561231012296 DNA adenine methylase; Provisional; Region: PRK10904 561231012297 hypothetical protein; Reviewed; Region: PRK11901 561231012298 cell division protein DamX; Validated; Region: PRK10905 561231012299 cell division protein DamX; Validated; Region: PRK10905 561231012300 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 561231012301 active site 561231012302 dimer interface [polypeptide binding]; other site 561231012303 metal binding site [ion binding]; metal-binding site 561231012304 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 561231012305 Secretin and TonB N terminus short domain; Region: STN; smart00965 561231012306 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561231012307 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561231012308 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 561231012309 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 561231012310 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 561231012311 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 561231012312 Transglycosylase; Region: Transgly; pfam00912 561231012313 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 561231012314 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 561231012315 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 561231012316 ADP-ribose binding site [chemical binding]; other site 561231012317 dimer interface [polypeptide binding]; other site 561231012318 active site 561231012319 nudix motif; other site 561231012320 metal binding site [ion binding]; metal-binding site 561231012321 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 561231012322 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 561231012323 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 561231012324 active site 561231012325 motif I; other site 561231012326 motif II; other site 561231012327 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 561231012328 RNA binding surface [nucleotide binding]; other site 561231012329 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 561231012330 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 561231012331 dimerization interface [polypeptide binding]; other site 561231012332 domain crossover interface; other site 561231012333 redox-dependent activation switch; other site 561231012334 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 561231012335 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 561231012336 active site 561231012337 substrate-binding site [chemical binding]; other site 561231012338 metal-binding site [ion binding] 561231012339 ATP binding site [chemical binding]; other site 561231012340 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 561231012341 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 561231012342 dimerization interface [polypeptide binding]; other site 561231012343 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 561231012344 dimer interface [polypeptide binding]; other site 561231012345 phosphorylation site [posttranslational modification] 561231012346 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 561231012347 ATP binding site [chemical binding]; other site 561231012348 Mg2+ binding site [ion binding]; other site 561231012349 G-X-G motif; other site 561231012350 osmolarity response regulator; Provisional; Region: ompR; PRK09468 561231012351 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 561231012352 active site 561231012353 phosphorylation site [posttranslational modification] 561231012354 intermolecular recognition site; other site 561231012355 dimerization interface [polypeptide binding]; other site 561231012356 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 561231012357 DNA binding site [nucleotide binding] 561231012358 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 561231012359 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 561231012360 intersubunit interface [polypeptide binding]; other site 561231012361 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 561231012362 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561231012363 putative substrate translocation pore; other site 561231012364 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561231012365 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 561231012366 N-terminal plug; other site 561231012367 ligand-binding site [chemical binding]; other site 561231012368 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 561231012369 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 561231012370 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 561231012371 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 561231012372 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 561231012373 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 561231012374 putative acyl-acceptor binding pocket; other site 561231012375 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 561231012376 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231012377 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561231012378 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231012379 dimer interface [polypeptide binding]; other site 561231012380 putative CheW interface [polypeptide binding]; other site 561231012381 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 561231012382 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 561231012383 dimer interface [polypeptide binding]; other site 561231012384 active site 561231012385 citrylCoA binding site [chemical binding]; other site 561231012386 NADH binding [chemical binding]; other site 561231012387 cationic pore residues; other site 561231012388 oxalacetate/citrate binding site [chemical binding]; other site 561231012389 coenzyme A binding site [chemical binding]; other site 561231012390 catalytic triad [active] 561231012391 Sensory domain found in PocR; Region: PocR; pfam10114 561231012392 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 561231012393 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 561231012394 Histidine kinase; Region: His_kinase; pfam06580 561231012395 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 561231012396 ATP binding site [chemical binding]; other site 561231012397 Mg2+ binding site [ion binding]; other site 561231012398 G-X-G motif; other site 561231012399 Response regulator receiver domain; Region: Response_reg; pfam00072 561231012400 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 561231012401 active site 561231012402 phosphorylation site [posttranslational modification] 561231012403 intermolecular recognition site; other site 561231012404 dimerization interface [polypeptide binding]; other site 561231012405 Nup85 Nucleoporin; Region: Nucleopor_Nup85; pfam07575 561231012406 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231012407 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231012408 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231012409 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 561231012410 S-adenosylmethionine synthetase; Validated; Region: PRK05250 561231012411 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 561231012412 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 561231012413 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 561231012414 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 561231012415 Hexamer interface [polypeptide binding]; other site 561231012416 Hexagonal pore residue; other site 561231012417 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 561231012418 amphipathic channel; other site 561231012419 Asn-Pro-Ala signature motifs; other site 561231012420 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 561231012421 4Fe-4S binding domain; Region: Fer4_6; pfam12837 561231012422 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 561231012423 FeS/SAM binding site; other site 561231012424 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 561231012425 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 561231012426 dimer interface [polypeptide binding]; other site 561231012427 active site 561231012428 glycine loop; other site 561231012429 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 561231012430 intracellular protease, PfpI family; Region: PfpI; TIGR01382 561231012431 conserved cys residue [active] 561231012432 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 561231012433 Hexamer interface [polypeptide binding]; other site 561231012434 Hexagonal pore residue; other site 561231012435 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 561231012436 putative catalytic cysteine [active] 561231012437 propanediol utilization protein PduB; Provisional; Region: PRK15415 561231012438 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 561231012439 putative hexamer interface [polypeptide binding]; other site 561231012440 putative hexagonal pore; other site 561231012441 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 561231012442 putative hexamer interface [polypeptide binding]; other site 561231012443 putative hexagonal pore; other site 561231012444 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 561231012445 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 561231012446 Hexamer interface [polypeptide binding]; other site 561231012447 Putative hexagonal pore residue; other site 561231012448 propionate/acetate kinase; Provisional; Region: PRK12379 561231012449 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 561231012450 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 561231012451 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 561231012452 Hexamer/Pentamer interface [polypeptide binding]; other site 561231012453 central pore; other site 561231012454 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 561231012455 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 561231012456 Propanediol utilisation protein PduL; Region: PduL; pfam06130 561231012457 Propanediol utilisation protein PduL; Region: PduL; pfam06130 561231012458 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 561231012459 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 561231012460 putative active site [active] 561231012461 metal binding site [ion binding]; metal-binding site 561231012462 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 561231012463 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 561231012464 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 561231012465 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 561231012466 RNA binding site [nucleotide binding]; other site 561231012467 Transcriptional regulator [Transcription]; Region: IclR; COG1414 561231012468 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 561231012469 Bacterial transcriptional regulator; Region: IclR; pfam01614 561231012470 2-keto-3-deoxygluconate permease; Region: KdgT; pfam03812 561231012471 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 561231012472 Uncharacterized conserved protein [Function unknown]; Region: COG1262 561231012473 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 561231012474 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561231012475 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561231012476 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561231012477 Walker A/P-loop; other site 561231012478 ATP binding site [chemical binding]; other site 561231012479 Q-loop/lid; other site 561231012480 ABC transporter signature motif; other site 561231012481 Walker B; other site 561231012482 D-loop; other site 561231012483 H-loop/switch region; other site 561231012484 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; cd00016 561231012485 dimer interface [polypeptide binding]; other site 561231012486 Alkaline phosphatase homologues; Region: alkPPc; smart00098 561231012487 active site 561231012488 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 561231012489 Protein export membrane protein; Region: SecD_SecF; cl14618 561231012490 carboxylesterase BioH; Provisional; Region: PRK10349 561231012491 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 561231012492 DNA utilization protein GntX; Provisional; Region: PRK11595 561231012493 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561231012494 active site 561231012495 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 561231012496 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 561231012497 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 561231012498 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 561231012499 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 561231012500 maltodextrin phosphorylase; Provisional; Region: PRK14985 561231012501 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 561231012502 active site pocket [active] 561231012503 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 561231012504 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 561231012505 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561231012506 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 561231012507 intramembrane serine protease GlpG; Provisional; Region: PRK10907 561231012508 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 561231012509 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561231012510 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 561231012511 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561231012512 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 561231012513 substrate binding site [chemical binding]; other site 561231012514 dimer interface [polypeptide binding]; other site 561231012515 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 561231012516 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 561231012517 inhibitor site; inhibition site 561231012518 active site 561231012519 dimer interface [polypeptide binding]; other site 561231012520 catalytic residue [active] 561231012521 Domain of unknown function (DUF386); Region: DUF386; cl01047 561231012522 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 561231012523 D-galactonate transporter; Region: 2A0114; TIGR00893 561231012524 putative substrate translocation pore; other site 561231012525 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 561231012526 active site residue [active] 561231012527 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 561231012528 glycogen phosphorylase; Provisional; Region: PRK14986 561231012529 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 561231012530 homodimer interface [polypeptide binding]; other site 561231012531 active site pocket [active] 561231012532 glycogen synthase; Provisional; Region: glgA; PRK00654 561231012533 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 561231012534 ADP-binding pocket [chemical binding]; other site 561231012535 homodimer interface [polypeptide binding]; other site 561231012536 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 561231012537 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 561231012538 ligand binding site; other site 561231012539 oligomer interface; other site 561231012540 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 561231012541 dimer interface [polypeptide binding]; other site 561231012542 N-terminal domain interface [polypeptide binding]; other site 561231012543 sulfate 1 binding site; other site 561231012544 glycogen debranching enzyme; Provisional; Region: PRK03705 561231012545 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 561231012546 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 561231012547 active site 561231012548 catalytic site [active] 561231012549 glycogen branching enzyme; Provisional; Region: PRK05402 561231012550 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 561231012551 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 561231012552 active site 561231012553 catalytic site [active] 561231012554 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 561231012555 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 561231012556 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 561231012557 GAF domain; Region: GAF; pfam01590 561231012558 Histidine kinase; Region: His_kinase; pfam06580 561231012559 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 561231012560 ATP binding site [chemical binding]; other site 561231012561 Mg2+ binding site [ion binding]; other site 561231012562 G-X-G motif; other site 561231012563 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 561231012564 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 561231012565 putative antibiotic transporter; Provisional; Region: PRK10739 561231012566 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 561231012567 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 561231012568 Pirin-related protein [General function prediction only]; Region: COG1741 561231012569 Pirin; Region: Pirin; pfam02678 561231012570 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 561231012571 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 561231012572 Cysteine-rich domain; Region: CCG; pfam02754 561231012573 Cysteine-rich domain; Region: CCG; pfam02754 561231012574 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 561231012575 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 561231012576 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 561231012577 hydroxyglutarate oxidase; Provisional; Region: PRK11728 561231012578 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 561231012579 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 561231012580 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 561231012581 putative substrate translocation pore; other site 561231012582 putative hydrolase; Provisional; Region: PRK10976 561231012583 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 561231012584 active site 561231012585 motif I; other site 561231012586 motif II; other site 561231012587 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561231012588 lysophospholipase L2; Provisional; Region: PRK10749 561231012589 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 561231012590 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 561231012591 threonine efflux system; Provisional; Region: PRK10229 561231012592 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 561231012593 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 561231012594 ATP binding site [chemical binding]; other site 561231012595 putative Mg++ binding site [ion binding]; other site 561231012596 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 561231012597 nucleotide binding region [chemical binding]; other site 561231012598 ATP-binding site [chemical binding]; other site 561231012599 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 561231012600 Helicase and RNase D C-terminal; Region: HRDC; smart00341 561231012601 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 561231012602 dimerization interface [polypeptide binding]; other site 561231012603 substrate binding site [chemical binding]; other site 561231012604 active site 561231012605 calcium binding site [ion binding]; other site 561231012606 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 561231012607 CoenzymeA binding site [chemical binding]; other site 561231012608 subunit interaction site [polypeptide binding]; other site 561231012609 PHB binding site; other site 561231012610 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 561231012611 EamA-like transporter family; Region: EamA; cl17759 561231012612 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 561231012613 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 561231012614 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 561231012615 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 561231012616 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 561231012617 Cl binding site [ion binding]; other site 561231012618 oligomer interface [polypeptide binding]; other site 561231012619 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 561231012620 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 561231012621 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 561231012622 Part of AAA domain; Region: AAA_19; pfam13245 561231012623 Family description; Region: UvrD_C_2; pfam13538 561231012624 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 561231012625 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 561231012626 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 561231012627 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 561231012628 active site 561231012629 DNA binding site [nucleotide binding] 561231012630 Int/Topo IB signature motif; other site 561231012631 hypothetical protein; Provisional; Region: PRK10963 561231012632 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 561231012633 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 561231012634 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 561231012635 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 561231012636 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 561231012637 putative iron binding site [ion binding]; other site 561231012638 adenylate cyclase; Provisional; Region: cyaA; PRK09450 561231012639 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 561231012640 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 561231012641 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 561231012642 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; cd00494 561231012643 domain interfaces; other site 561231012644 active site 561231012645 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 561231012646 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 561231012647 active site 561231012648 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 561231012649 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 561231012650 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 561231012651 HemY protein N-terminus; Region: HemY_N; pfam07219 561231012652 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 561231012653 TPR motif; other site 561231012654 binding surface 561231012655 Transcriptional regulators [Transcription]; Region: GntR; COG1802 561231012656 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231012657 DNA-binding site [nucleotide binding]; DNA binding site 561231012658 FCD domain; Region: FCD; pfam07729 561231012659 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 561231012660 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 561231012661 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561231012662 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 561231012663 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 561231012664 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231012665 substrate binding pocket [chemical binding]; other site 561231012666 membrane-bound complex binding site; other site 561231012667 hinge residues; other site 561231012668 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 561231012669 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 561231012670 conserved gate region; other site 561231012671 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 561231012672 dimer interface [polypeptide binding]; other site 561231012673 conserved gate region; other site 561231012674 putative PBP binding loops; other site 561231012675 ABC-ATPase subunit interface; other site 561231012676 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231012677 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 561231012678 dimer interface [polypeptide binding]; other site 561231012679 conserved gate region; other site 561231012680 putative PBP binding loops; other site 561231012681 ABC-ATPase subunit interface; other site 561231012682 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561231012683 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561231012684 Walker A/P-loop; other site 561231012685 ATP binding site [chemical binding]; other site 561231012686 Q-loop/lid; other site 561231012687 ABC transporter signature motif; other site 561231012688 Walker B; other site 561231012689 D-loop; other site 561231012690 H-loop/switch region; other site 561231012691 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 561231012692 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 561231012693 metal binding site [ion binding]; metal-binding site 561231012694 dimer interface [polypeptide binding]; other site 561231012695 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561231012696 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561231012697 Walker A/P-loop; other site 561231012698 ATP binding site [chemical binding]; other site 561231012699 Q-loop/lid; other site 561231012700 ABC transporter signature motif; other site 561231012701 Walker B; other site 561231012702 D-loop; other site 561231012703 H-loop/switch region; other site 561231012704 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 561231012705 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561231012706 dimer interface [polypeptide binding]; other site 561231012707 conserved gate region; other site 561231012708 putative PBP binding loops; other site 561231012709 ABC-ATPase subunit interface; other site 561231012710 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561231012711 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231012712 substrate binding pocket [chemical binding]; other site 561231012713 membrane-bound complex binding site; other site 561231012714 hinge residues; other site 561231012715 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561231012716 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231012717 Coenzyme A binding pocket [chemical binding]; other site 561231012718 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 561231012719 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 561231012720 tetramer interface [polypeptide binding]; other site 561231012721 active site 561231012722 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 561231012723 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 561231012724 catalytic core [active] 561231012725 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 561231012726 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 561231012727 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 561231012728 putative active site [active] 561231012729 metal binding site [ion binding]; metal-binding site 561231012730 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561231012731 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231012732 substrate binding pocket [chemical binding]; other site 561231012733 membrane-bound complex binding site; other site 561231012734 hinge residues; other site 561231012735 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 561231012736 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 561231012737 putative common antigen polymerase; Provisional; Region: PRK02975 561231012738 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 561231012739 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 561231012740 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 561231012741 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 561231012742 inhibitor-cofactor binding pocket; inhibition site 561231012743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231012744 catalytic residue [active] 561231012745 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 561231012746 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231012747 Coenzyme A binding pocket [chemical binding]; other site 561231012748 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 561231012749 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 561231012750 NAD binding site [chemical binding]; other site 561231012751 substrate binding site [chemical binding]; other site 561231012752 homodimer interface [polypeptide binding]; other site 561231012753 active site 561231012754 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 561231012755 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 561231012756 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 561231012757 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 561231012758 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 561231012759 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 561231012760 active site 561231012761 homodimer interface [polypeptide binding]; other site 561231012762 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 561231012763 Chain length determinant protein; Region: Wzz; pfam02706 561231012764 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 561231012765 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 561231012766 Mg++ binding site [ion binding]; other site 561231012767 putative catalytic motif [active] 561231012768 substrate binding site [chemical binding]; other site 561231012769 transcription termination factor Rho; Provisional; Region: rho; PRK09376 561231012770 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 561231012771 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 561231012772 RNA binding site [nucleotide binding]; other site 561231012773 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 561231012774 multimer interface [polypeptide binding]; other site 561231012775 Walker A motif; other site 561231012776 ATP binding site [chemical binding]; other site 561231012777 Walker B motif; other site 561231012778 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 561231012779 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 561231012780 catalytic residues [active] 561231012781 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 561231012782 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 561231012783 ATP binding site [chemical binding]; other site 561231012784 Mg++ binding site [ion binding]; other site 561231012785 motif III; other site 561231012786 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 561231012787 nucleotide binding region [chemical binding]; other site 561231012788 ATP-binding site [chemical binding]; other site 561231012789 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 561231012790 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 561231012791 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 561231012792 Part of AAA domain; Region: AAA_19; pfam13245 561231012793 Family description; Region: UvrD_C_2; pfam13538 561231012794 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 561231012795 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 561231012796 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 561231012797 Predicted transcriptional regulator [Transcription]; Region: COG3905 561231012798 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 561231012799 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 561231012800 Glutamate binding site [chemical binding]; other site 561231012801 NAD binding site [chemical binding]; other site 561231012802 catalytic residues [active] 561231012803 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 561231012804 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 561231012805 Na binding site [ion binding]; other site 561231012806 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231012807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231012808 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 561231012809 dimerization interface [polypeptide binding]; other site 561231012810 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 561231012811 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 561231012812 ketol-acid reductoisomerase; Validated; Region: PRK05225 561231012813 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 561231012814 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 561231012815 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 561231012816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231012817 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 561231012818 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 561231012819 putative dimerization interface [polypeptide binding]; other site 561231012820 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 561231012821 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 561231012822 threonine dehydratase; Reviewed; Region: PRK09224 561231012823 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 561231012824 tetramer interface [polypeptide binding]; other site 561231012825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231012826 catalytic residue [active] 561231012827 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 561231012828 putative Ile/Val binding site [chemical binding]; other site 561231012829 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 561231012830 putative Ile/Val binding site [chemical binding]; other site 561231012831 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 561231012832 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 561231012833 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 561231012834 homodimer interface [polypeptide binding]; other site 561231012835 substrate-cofactor binding pocket; other site 561231012836 catalytic residue [active] 561231012837 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 561231012838 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 561231012839 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561231012840 PYR/PP interface [polypeptide binding]; other site 561231012841 dimer interface [polypeptide binding]; other site 561231012842 TPP binding site [chemical binding]; other site 561231012843 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561231012844 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 561231012845 TPP-binding site [chemical binding]; other site 561231012846 dimer interface [polypeptide binding]; other site 561231012847 putative ATP-dependent protease; Provisional; Region: PRK09862 561231012848 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 561231012849 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 561231012850 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 561231012851 hypothetical protein; Provisional; Region: PRK11027 561231012852 transcriptional regulator HdfR; Provisional; Region: PRK03601 561231012853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231012854 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 561231012855 dimerization interface [polypeptide binding]; other site 561231012856 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231012857 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561231012858 TM-ABC transporter signature motif; other site 561231012859 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231012860 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561231012861 TM-ABC transporter signature motif; other site 561231012862 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561231012863 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561231012864 Walker A/P-loop; other site 561231012865 ATP binding site [chemical binding]; other site 561231012866 Q-loop/lid; other site 561231012867 ABC transporter signature motif; other site 561231012868 Walker B; other site 561231012869 D-loop; other site 561231012870 H-loop/switch region; other site 561231012871 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561231012872 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 561231012873 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 561231012874 putative ligand binding site [chemical binding]; other site 561231012875 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 561231012876 potassium transporter; Provisional; Region: PRK10750 561231012877 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 561231012878 hypothetical protein; Provisional; Region: PRK11568 561231012879 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 561231012880 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 561231012881 proline dipeptidase; Provisional; Region: PRK13607 561231012882 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 561231012883 active site 561231012884 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 561231012885 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 561231012886 substrate binding site [chemical binding]; other site 561231012887 oxyanion hole (OAH) forming residues; other site 561231012888 trimer interface [polypeptide binding]; other site 561231012889 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 561231012890 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 561231012891 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 561231012892 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 561231012893 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 561231012894 dimer interface [polypeptide binding]; other site 561231012895 active site 561231012896 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561231012897 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561231012898 FMN reductase; Validated; Region: fre; PRK08051 561231012899 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 561231012900 FAD binding pocket [chemical binding]; other site 561231012901 FAD binding motif [chemical binding]; other site 561231012902 phosphate binding motif [ion binding]; other site 561231012903 beta-alpha-beta structure motif; other site 561231012904 NAD binding pocket [chemical binding]; other site 561231012905 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 561231012906 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 561231012907 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 561231012908 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 561231012909 dimer interface [polypeptide binding]; other site 561231012910 allosteric magnesium binding site [ion binding]; other site 561231012911 active site 561231012912 aspartate-rich active site metal binding site; other site 561231012913 Schiff base residues; other site 561231012914 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 561231012915 active site 561231012916 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 561231012917 sec-independent translocase; Provisional; Region: PRK01770 561231012918 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 561231012919 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 561231012920 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 561231012921 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 561231012922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 561231012923 SCP-2 sterol transfer family; Region: SCP2; pfam02036 561231012924 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 561231012925 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 561231012926 S-adenosylmethionine binding site [chemical binding]; other site 561231012927 RmuC family; Region: RmuC; pfam02646 561231012928 argininosuccinate lyase; Provisional; Region: PRK04833 561231012929 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 561231012930 active sites [active] 561231012931 tetramer interface [polypeptide binding]; other site 561231012932 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 561231012933 nucleotide binding site [chemical binding]; other site 561231012934 N-acetyl-L-glutamate binding site [chemical binding]; other site 561231012935 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 561231012936 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 561231012937 acetylornithine deacetylase; Provisional; Region: PRK05111 561231012938 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 561231012939 metal binding site [ion binding]; metal-binding site 561231012940 putative dimer interface [polypeptide binding]; other site 561231012941 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 561231012942 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231012943 DNA-binding site [nucleotide binding]; DNA binding site 561231012944 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 561231012945 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 561231012946 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 561231012947 putative active site pocket [active] 561231012948 putative metal binding site [ion binding]; other site 561231012949 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 561231012950 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561231012951 active site turn [active] 561231012952 phosphorylation site [posttranslational modification] 561231012953 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561231012954 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561231012955 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561231012956 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561231012957 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561231012958 Uncharacterized conserved protein [Function unknown]; Region: COG4104 561231012959 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 561231012960 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231012961 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 561231012962 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231012963 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231012964 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 561231012965 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231012966 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 561231012967 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 561231012968 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 561231012969 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231012970 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231012971 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 561231012972 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561231012973 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 561231012974 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 561231012975 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 561231012976 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 561231012977 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 561231012978 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 561231012979 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 561231012980 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 561231012981 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 561231012982 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 561231012983 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231012984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231012985 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 561231012986 dimerization interface [polypeptide binding]; other site 561231012987 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 561231012988 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561231012989 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561231012990 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 561231012991 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 561231012992 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 561231012993 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 561231012994 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 561231012995 TolR protein; Region: tolR; TIGR02801 561231012996 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561231012997 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 561231012998 dimer interface [polypeptide binding]; other site 561231012999 conserved gate region; other site 561231013000 putative PBP binding loops; other site 561231013001 ABC-ATPase subunit interface; other site 561231013002 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561231013003 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 561231013004 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561231013005 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561231013006 Walker A/P-loop; other site 561231013007 ATP binding site [chemical binding]; other site 561231013008 Q-loop/lid; other site 561231013009 ABC transporter signature motif; other site 561231013010 Walker B; other site 561231013011 D-loop; other site 561231013012 H-loop/switch region; other site 561231013013 Barstar (barnase inhibitor); Region: Barstar; pfam01337 561231013014 RNAase interaction site [polypeptide binding]; other site 561231013015 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 561231013016 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 561231013017 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 561231013018 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 561231013019 uridine phosphorylase; Provisional; Region: PRK11178 561231013020 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 561231013021 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 561231013022 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561231013023 CHASE3 domain; Region: CHASE3; cl05000 561231013024 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231013025 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561231013026 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 561231013027 dimerization interface [polypeptide binding]; other site 561231013028 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231013029 dimer interface [polypeptide binding]; other site 561231013030 putative CheW interface [polypeptide binding]; other site 561231013031 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561231013032 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 561231013033 dimerization interface [polypeptide binding]; other site 561231013034 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231013035 dimer interface [polypeptide binding]; other site 561231013036 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561231013037 putative CheW interface [polypeptide binding]; other site 561231013038 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 561231013039 CIMS - Cobalamine-independent methonine synthase, or MetE, N-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_N_terminal_like; cd03312 561231013040 THF binding site; other site 561231013041 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 561231013042 substrate binding site [chemical binding]; other site 561231013043 THF binding site; other site 561231013044 zinc-binding site [ion binding]; other site 561231013045 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 561231013046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231013047 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 561231013048 putative dimerization interface [polypeptide binding]; other site 561231013049 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 561231013050 EamA-like transporter family; Region: EamA; cl17759 561231013051 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 561231013052 serine acetyltransferase; Provisional; Region: cysE; PRK11132 561231013053 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 561231013054 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 561231013055 trimer interface [polypeptide binding]; other site 561231013056 active site 561231013057 substrate binding site [chemical binding]; other site 561231013058 CoA binding site [chemical binding]; other site 561231013059 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 561231013060 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 561231013061 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 561231013062 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 561231013063 SecA binding site; other site 561231013064 Preprotein binding site; other site 561231013065 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 561231013066 active site residue [active] 561231013067 AmiB activator; Provisional; Region: PRK11637 561231013068 Peptidase family M23; Region: Peptidase_M23; pfam01551 561231013069 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 561231013070 NodB motif; other site 561231013071 putative active site [active] 561231013072 putative catalytic site [active] 561231013073 Zn binding site [ion binding]; other site 561231013074 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 561231013075 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 561231013076 NAD(P) binding site [chemical binding]; other site 561231013077 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 561231013078 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 561231013079 substrate-cofactor binding pocket; other site 561231013080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561231013081 catalytic residue [active] 561231013082 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 561231013083 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 561231013084 NADP binding site [chemical binding]; other site 561231013085 homopentamer interface [polypeptide binding]; other site 561231013086 substrate binding site [chemical binding]; other site 561231013087 active site 561231013088 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 561231013089 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 561231013090 putative active site [active] 561231013091 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 561231013092 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 561231013093 putative active site [active] 561231013094 O-Antigen ligase; Region: Wzy_C; pfam04932 561231013095 O-Antigen ligase; Region: Wzy_C; pfam04932 561231013096 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 561231013097 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 561231013098 putative active site [active] 561231013099 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561231013100 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 561231013101 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 561231013102 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 561231013103 Ligand binding site; other site 561231013104 metal-binding site 561231013105 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 561231013106 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 561231013107 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 561231013108 Ligand binding site; other site 561231013109 metal-binding site 561231013110 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 561231013111 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 561231013112 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 561231013113 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 561231013114 putative metal binding site; other site 561231013115 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 561231013116 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 561231013117 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 561231013118 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 561231013119 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 561231013120 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 561231013121 active site 561231013122 (T/H)XGH motif; other site 561231013123 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 561231013124 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561231013125 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 561231013126 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 561231013127 DNA binding site [nucleotide binding] 561231013128 catalytic residue [active] 561231013129 H2TH interface [polypeptide binding]; other site 561231013130 putative catalytic residues [active] 561231013131 turnover-facilitating residue; other site 561231013132 intercalation triad [nucleotide binding]; other site 561231013133 8OG recognition residue [nucleotide binding]; other site 561231013134 putative reading head residues; other site 561231013135 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 561231013136 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 561231013137 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 561231013138 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 561231013139 hypothetical protein; Reviewed; Region: PRK00024 561231013140 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 561231013141 MPN+ (JAMM) motif; other site 561231013142 Zinc-binding site [ion binding]; other site 561231013143 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 561231013144 Flavoprotein; Region: Flavoprotein; pfam02441 561231013145 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 561231013146 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 561231013147 trimer interface [polypeptide binding]; other site 561231013148 active site 561231013149 division inhibitor protein; Provisional; Region: slmA; PRK09480 561231013150 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561231013151 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561231013152 active site 561231013153 ribonuclease PH; Reviewed; Region: rph; PRK00173 561231013154 Ribonuclease PH; Region: RNase_PH_bact; cd11362 561231013155 hexamer interface [polypeptide binding]; other site 561231013156 active site 561231013157 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 561231013158 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 561231013159 active site 561231013160 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561231013161 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231013162 Walker A/P-loop; other site 561231013163 ATP binding site [chemical binding]; other site 561231013164 Q-loop/lid; other site 561231013165 ABC transporter signature motif; other site 561231013166 Walker B; other site 561231013167 D-loop; other site 561231013168 H-loop/switch region; other site 561231013169 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 561231013170 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231013171 Walker A/P-loop; other site 561231013172 ATP binding site [chemical binding]; other site 561231013173 Q-loop/lid; other site 561231013174 ABC transporter signature motif; other site 561231013175 Walker B; other site 561231013176 D-loop; other site 561231013177 H-loop/switch region; other site 561231013178 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 561231013179 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 561231013180 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 561231013181 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 561231013182 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 561231013183 dimer interface [polypeptide binding]; other site 561231013184 conserved gate region; other site 561231013185 putative PBP binding loops; other site 561231013186 ABC-ATPase subunit interface; other site 561231013187 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 561231013188 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561231013189 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 561231013190 dimer interface [polypeptide binding]; other site 561231013191 conserved gate region; other site 561231013192 putative PBP binding loops; other site 561231013193 ABC-ATPase subunit interface; other site 561231013194 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 561231013195 homodimer interface [polypeptide binding]; other site 561231013196 homotetramer interface [polypeptide binding]; other site 561231013197 active site pocket [active] 561231013198 cleavage site 561231013199 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 561231013200 SxDxEG motif; other site 561231013201 active site 561231013202 metal binding site [ion binding]; metal-binding site 561231013203 homopentamer interface [polypeptide binding]; other site 561231013204 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 561231013205 catalytic nucleophile [active] 561231013206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561231013207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231013208 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 561231013209 dimerization interface [polypeptide binding]; other site 561231013210 hypothetical protein; Provisional; Region: PRK11820 561231013211 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 561231013212 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 561231013213 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 561231013214 non-specific DNA binding site [nucleotide binding]; other site 561231013215 salt bridge; other site 561231013216 sequence-specific DNA binding site [nucleotide binding]; other site 561231013217 Domain of unknown function DUF20; Region: UPF0118; pfam01594 561231013218 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 561231013219 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 561231013220 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 561231013221 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 561231013222 phosphate binding site [ion binding]; other site 561231013223 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 561231013224 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 561231013225 NAD binding site [chemical binding]; other site 561231013226 catalytic residues [active] 561231013227 substrate binding site [chemical binding]; other site 561231013228 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 561231013229 Fatty acid desaturase; Region: FA_desaturase; pfam00487 561231013230 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 561231013231 putative di-iron ligands [ion binding]; other site 561231013232 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 561231013233 Fatty acid desaturase; Region: FA_desaturase; pfam00487 561231013234 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 561231013235 putative di-iron ligands [ion binding]; other site 561231013236 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 561231013237 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 561231013238 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 561231013239 active site 561231013240 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 561231013241 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 561231013242 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 561231013243 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 561231013244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561231013245 NAD(P) binding site [chemical binding]; other site 561231013246 active site 561231013247 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07204 561231013248 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 561231013249 dimer interface [polypeptide binding]; other site 561231013250 active site 561231013251 CoA binding pocket [chemical binding]; other site 561231013252 GlpM protein; Region: GlpM; pfam06942 561231013253 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 561231013254 active site residue [active] 561231013255 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 561231013256 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 561231013257 conserved cys residue [active] 561231013258 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231013259 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231013260 acyl-CoA thioesterase; Provisional; Region: PRK10531 561231013261 putative pectinesterase; Region: PLN02432; cl01911 561231013262 transcriptional regulator TraR; Provisional; Region: PRK13870 561231013263 Autoinducer binding domain; Region: Autoind_bind; pfam03472 561231013264 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 561231013265 DNA binding residues [nucleotide binding] 561231013266 dimerization interface [polypeptide binding]; other site 561231013267 Autoinducer synthetase; Region: Autoind_synth; pfam00765 561231013268 argininosuccinate synthase; Validated; Region: PRK05370 561231013269 DJ-1 family protein; Region: not_thiJ; TIGR01383 561231013270 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 561231013271 conserved cys residue [active] 561231013272 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 561231013273 putative dimerization interface [polypeptide binding]; other site 561231013274 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561231013275 putative ligand binding site [chemical binding]; other site 561231013276 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561231013277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561231013278 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231013279 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561231013280 TM-ABC transporter signature motif; other site 561231013281 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 561231013282 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561231013283 Walker A/P-loop; other site 561231013284 ATP binding site [chemical binding]; other site 561231013285 Q-loop/lid; other site 561231013286 ABC transporter signature motif; other site 561231013287 Walker B; other site 561231013288 D-loop; other site 561231013289 H-loop/switch region; other site 561231013290 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561231013291 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 561231013292 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 561231013293 putative ligand binding site [chemical binding]; other site 561231013294 xylose isomerase; Provisional; Region: PRK05474 561231013295 xylose isomerase; Region: xylose_isom_A; TIGR02630 561231013296 xylulokinase; Provisional; Region: PRK15027 561231013297 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 561231013298 N- and C-terminal domain interface [polypeptide binding]; other site 561231013299 active site 561231013300 MgATP binding site [chemical binding]; other site 561231013301 catalytic site [active] 561231013302 metal binding site [ion binding]; metal-binding site 561231013303 xylulose binding site [chemical binding]; other site 561231013304 homodimer interface [polypeptide binding]; other site 561231013305 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 561231013306 Acyltransferase family; Region: Acyl_transf_3; pfam01757 561231013307 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 561231013308 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 561231013309 NAD(P) binding site [chemical binding]; other site 561231013310 catalytic residues [active] 561231013311 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 561231013312 superoxide dismutase; Provisional; Region: PRK10925 561231013313 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 561231013314 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 561231013315 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 561231013316 dimerization interface [polypeptide binding]; other site 561231013317 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231013318 dimer interface [polypeptide binding]; other site 561231013319 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561231013320 putative CheW interface [polypeptide binding]; other site 561231013321 hypothetical protein; Provisional; Region: PRK11020 561231013322 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 561231013323 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 561231013324 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 561231013325 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561231013326 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561231013327 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 561231013328 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 561231013329 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 561231013330 active site 561231013331 P-loop; other site 561231013332 phosphorylation site [posttranslational modification] 561231013333 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561231013334 active site 561231013335 phosphorylation site [posttranslational modification] 561231013336 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 561231013337 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 561231013338 DALR anticodon binding domain; Region: DALR_1; pfam05746 561231013339 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 561231013340 dimer interface [polypeptide binding]; other site 561231013341 motif 1; other site 561231013342 active site 561231013343 motif 2; other site 561231013344 motif 3; other site 561231013345 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561231013346 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 561231013347 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561231013348 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231013349 Coenzyme A binding pocket [chemical binding]; other site 561231013350 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561231013351 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 561231013352 dimerization interface [polypeptide binding]; other site 561231013353 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561231013354 dimer interface [polypeptide binding]; other site 561231013355 putative CheW interface [polypeptide binding]; other site 561231013356 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 561231013357 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 561231013358 dimerization interface [polypeptide binding]; other site 561231013359 ligand binding site [chemical binding]; other site 561231013360 NADP binding site [chemical binding]; other site 561231013361 catalytic site [active] 561231013362 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561231013363 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 561231013364 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561231013365 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 561231013366 dimer interface [polypeptide binding]; other site 561231013367 conserved gate region; other site 561231013368 putative PBP binding loops; other site 561231013369 ABC-ATPase subunit interface; other site 561231013370 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 561231013371 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 561231013372 putative PBP binding loops; other site 561231013373 dimer interface [polypeptide binding]; other site 561231013374 ABC-ATPase subunit interface; other site 561231013375 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561231013376 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231013377 Walker A/P-loop; other site 561231013378 ATP binding site [chemical binding]; other site 561231013379 Q-loop/lid; other site 561231013380 ABC transporter signature motif; other site 561231013381 Walker B; other site 561231013382 D-loop; other site 561231013383 H-loop/switch region; other site 561231013384 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561231013385 Walker A/P-loop; other site 561231013386 ATP binding site [chemical binding]; other site 561231013387 Q-loop/lid; other site 561231013388 ABC transporter signature motif; other site 561231013389 Walker B; other site 561231013390 D-loop; other site 561231013391 H-loop/switch region; other site 561231013392 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561231013393 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 561231013394 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 561231013395 CMD domain protein, Avi_7170 family; Region: CMD_Avi_7170; TIGR04029 561231013396 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 561231013397 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 561231013398 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; cl15820 561231013399 putative sugar binding sites [chemical binding]; other site 561231013400 Q-X-W motif; other site 561231013401 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; pfam05870 561231013402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561231013403 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 561231013404 LysR substrate binding domain; Region: LysR_substrate; pfam03466 561231013405 dimerization interface [polypeptide binding]; other site 561231013406 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561231013407 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 561231013408 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 561231013409 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 561231013410 FAD binding pocket [chemical binding]; other site 561231013411 FAD binding motif [chemical binding]; other site 561231013412 phosphate binding motif [ion binding]; other site 561231013413 NAD binding pocket [chemical binding]; other site 561231013414 Homeodomain-like domain; Region: HTH_23; pfam13384 561231013415 glutathione reductase; Validated; Region: PRK06116 561231013416 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561231013417 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231013418 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 561231013419 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 561231013420 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 561231013421 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 561231013422 HSP70 interaction site [polypeptide binding]; other site 561231013423 Protein of unknown function (DUF805); Region: DUF805; pfam05656 561231013424 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 561231013425 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 561231013426 nucleotide binding site [chemical binding]; other site 561231013427 putative NEF/HSP70 interaction site [polypeptide binding]; other site 561231013428 SBD interface [polypeptide binding]; other site 561231013429 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 561231013430 oligopeptidase A; Provisional; Region: PRK10911 561231013431 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 561231013432 active site 561231013433 Zn binding site [ion binding]; other site 561231013434 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 561231013435 S-adenosylmethionine binding site [chemical binding]; other site 561231013436 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 561231013437 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 561231013438 active site 561231013439 metal binding site [ion binding]; metal-binding site 561231013440 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 561231013441 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 561231013442 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 561231013443 glutamate dehydrogenase; Provisional; Region: PRK09414 561231013444 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 561231013445 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 561231013446 NAD(P) binding site [chemical binding]; other site 561231013447 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 561231013448 Ligand Binding Site [chemical binding]; other site 561231013449 universal stress protein UspB; Provisional; Region: PRK04960 561231013450 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 561231013451 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 561231013452 Predicted flavoproteins [General function prediction only]; Region: COG2081 561231013453 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561231013454 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 561231013455 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 561231013456 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 561231013457 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 561231013458 phosphoethanolamine transferase; Provisional; Region: PRK11560 561231013459 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 561231013460 Sulfatase; Region: Sulfatase; pfam00884 561231013461 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 561231013462 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; cl03295 561231013463 nucleotide binding pocket [chemical binding]; other site 561231013464 K-X-D-G motif; other site 561231013465 catalytic site [active] 561231013466 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 561231013467 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 561231013468 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 561231013469 catalytic site [active] 561231013470 G-X2-G-X-G-K; other site 561231013471 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 561231013472 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 561231013473 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561231013474 Zn2+ binding site [ion binding]; other site 561231013475 Mg2+ binding site [ion binding]; other site 561231013476 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 561231013477 synthetase active site [active] 561231013478 NTP binding site [chemical binding]; other site 561231013479 metal binding site [ion binding]; metal-binding site 561231013480 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 561231013481 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 561231013482 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 561231013483 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561231013484 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 561231013485 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 561231013486 Y-family of DNA polymerases; Region: PolY; cl12025 561231013487 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 561231013488 generic binding surface II; other site 561231013489 ssDNA binding site; other site 561231013490 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 561231013491 ATP binding site [chemical binding]; other site 561231013492 putative Mg++ binding site [ion binding]; other site 561231013493 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 561231013494 nucleotide binding region [chemical binding]; other site 561231013495 ATP-binding site [chemical binding]; other site 561231013496 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 561231013497 AsmA family; Region: AsmA; pfam05170 561231013498 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 561231013499 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561231013500 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561231013501 Coenzyme A binding pocket [chemical binding]; other site 561231013502 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 561231013503 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 561231013504 putative active site [active] 561231013505 dimerization interface [polypeptide binding]; other site 561231013506 putative tRNAtyr binding site [nucleotide binding]; other site 561231013507 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 561231013508 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 561231013509 motif II; other site 561231013510 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 561231013511 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 561231013512 G1 box; other site 561231013513 putative GEF interaction site [polypeptide binding]; other site 561231013514 GTP/Mg2+ binding site [chemical binding]; other site 561231013515 Switch I region; other site 561231013516 G2 box; other site 561231013517 G3 box; other site 561231013518 Switch II region; other site 561231013519 G4 box; other site 561231013520 G5 box; other site 561231013521 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 561231013522 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 561231013523 glutamine synthetase; Provisional; Region: glnA; PRK09469 561231013524 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 561231013525 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 561231013526 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 561231013527 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 561231013528 dimer interface [polypeptide binding]; other site 561231013529 phosphorylation site [posttranslational modification] 561231013530 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 561231013531 ATP binding site [chemical binding]; other site 561231013532 Mg2+ binding site [ion binding]; other site 561231013533 G-X-G motif; other site 561231013534 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 561231013535 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 561231013536 active site 561231013537 phosphorylation site [posttranslational modification] 561231013538 intermolecular recognition site; other site 561231013539 dimerization interface [polypeptide binding]; other site 561231013540 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 561231013541 Walker A motif; other site 561231013542 ATP binding site [chemical binding]; other site 561231013543 Walker B motif; other site 561231013544 arginine finger; other site 561231013545 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 561231013546 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 561231013547 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 561231013548 catalytic loop [active] 561231013549 iron binding site [ion binding]; other site 561231013550 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 561231013551 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 561231013552 FeS/SAM binding site; other site 561231013553 HemN C-terminal domain; Region: HemN_C; pfam06969 561231013554 Der GTPase activator; Provisional; Region: PRK05244 561231013555 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 561231013556 G1 box; other site 561231013557 GTP/Mg2+ binding site [chemical binding]; other site 561231013558 Switch I region; other site 561231013559 G2 box; other site 561231013560 G3 box; other site 561231013561 Switch II region; other site 561231013562 G4 box; other site 561231013563 G5 box; other site 561231013564 DNA polymerase I; Provisional; Region: PRK05755 561231013565 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 561231013566 active site 561231013567 metal binding site 1 [ion binding]; metal-binding site 561231013568 putative 5' ssDNA interaction site; other site 561231013569 metal binding site 3; metal-binding site 561231013570 metal binding site 2 [ion binding]; metal-binding site 561231013571 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 561231013572 putative DNA binding site [nucleotide binding]; other site 561231013573 putative metal binding site [ion binding]; other site 561231013574 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 561231013575 active site 561231013576 catalytic site [active] 561231013577 substrate binding site [chemical binding]; other site 561231013578 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 561231013579 active site 561231013580 DNA binding site [nucleotide binding] 561231013581 catalytic site [active] 561231013582 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 561231013583 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 561231013584 catalytic residues [active] 561231013585 hinge region; other site 561231013586 alpha helical domain; other site 561231013587 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 561231013588 serine/threonine protein kinase; Provisional; Region: PRK11768 561231013589 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 561231013590 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 561231013591 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 561231013592 GTP binding site; other site 561231013593 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 561231013594 Walker A motif; other site 561231013595 transcriptional repressor RbsR; Provisional; Region: PRK10423 561231013596 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561231013597 DNA binding site [nucleotide binding] 561231013598 domain linker motif; other site 561231013599 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 561231013600 dimerization interface [polypeptide binding]; other site 561231013601 ligand binding site [chemical binding]; other site 561231013602 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561231013603 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 561231013604 substrate binding site [chemical binding]; other site 561231013605 dimer interface [polypeptide binding]; other site 561231013606 ATP binding site [chemical binding]; other site 561231013607 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 561231013608 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 561231013609 ligand binding site [chemical binding]; other site 561231013610 dimerization interface [polypeptide binding]; other site 561231013611 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561231013612 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561231013613 TM-ABC transporter signature motif; other site 561231013614 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 561231013615 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561231013616 Walker A/P-loop; other site 561231013617 ATP binding site [chemical binding]; other site 561231013618 Q-loop/lid; other site 561231013619 ABC transporter signature motif; other site 561231013620 Walker B; other site 561231013621 D-loop; other site 561231013622 H-loop/switch region; other site 561231013623 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561231013624 D-ribose pyranase; Provisional; Region: PRK11797 561231013625 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 561231013626 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 561231013627 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 561231013628 active site 561231013629 phosphorylation site [posttranslational modification] 561231013630 intermolecular recognition site; other site 561231013631 dimerization interface [polypeptide binding]; other site 561231013632 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 561231013633 DNA binding site [nucleotide binding] 561231013634 sensor protein QseC; Provisional; Region: PRK10337 561231013635 HAMP domain; Region: HAMP; pfam00672 561231013636 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 561231013637 dimer interface [polypeptide binding]; other site 561231013638 phosphorylation site [posttranslational modification] 561231013639 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 561231013640 ATP binding site [chemical binding]; other site 561231013641 Mg2+ binding site [ion binding]; other site 561231013642 G-X-G motif; other site 561231013643 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 561231013644 potassium uptake protein; Region: kup; TIGR00794 561231013645 regulatory ATPase RavA; Provisional; Region: PRK13531 561231013646 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 561231013647 Walker A motif; other site 561231013648 ATP binding site [chemical binding]; other site 561231013649 Walker B motif; other site 561231013650 arginine finger; other site 561231013651 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 561231013652 hypothetical protein; Provisional; Region: yieM; PRK10997 561231013653 VWA YIEM 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_YIEM_type; cd01462 561231013654 metal ion-dependent adhesion site (MIDAS); other site 561231013655 Asparagine synthetase A [Amino acid transport and metabolism]; Region: AsnA; COG2502 561231013656 motif 1; other site 561231013657 dimer interface [polypeptide binding]; other site 561231013658 active site 561231013659 motif 2; other site 561231013660 motif 3; other site 561231013661 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 561231013662 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 561231013663 putative DNA binding site [nucleotide binding]; other site 561231013664 putative Zn2+ binding site [ion binding]; other site 561231013665 AsnC family; Region: AsnC_trans_reg; pfam01037 561231013666 FMN-binding protein MioC; Provisional; Region: PRK09004 561231013667 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 561231013668 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 561231013669 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 561231013670 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 561231013671 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 561231013672 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 561231013673 S-adenosylmethionine binding site [chemical binding]; other site 561231013674 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 561231013675 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 561231013676 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 561231013677 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 561231013678 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 561231013679 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 561231013680 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 561231013681 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 561231013682 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 561231013683 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 561231013684 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 561231013685 beta subunit interaction interface [polypeptide binding]; other site 561231013686 Walker A motif; other site 561231013687 ATP binding site [chemical binding]; other site 561231013688 Walker B motif; other site 561231013689 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 561231013690 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 561231013691 core domain interface [polypeptide binding]; other site 561231013692 delta subunit interface [polypeptide binding]; other site 561231013693 epsilon subunit interface [polypeptide binding]; other site 561231013694 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 561231013695 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 561231013696 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 561231013697 alpha subunit interaction interface [polypeptide binding]; other site 561231013698 Walker A motif; other site 561231013699 ATP binding site [chemical binding]; other site 561231013700 Walker B motif; other site 561231013701 inhibitor binding site; inhibition site 561231013702 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 561231013703 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 561231013704 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 561231013705 gamma subunit interface [polypeptide binding]; other site 561231013706 epsilon subunit interface [polypeptide binding]; other site 561231013707 LBP interface [polypeptide binding]; other site 561231013708 N-formylglutamate amidohydrolase; Region: FGase; cl01522 561231013709 imidazolonepropionase; Validated; Region: PRK09356 561231013710 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 561231013711 active site 561231013712 urocanate hydratase; Provisional; Region: PRK05414 561231013713 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 561231013714 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 561231013715 Walker A/P-loop; other site 561231013716 ATP binding site [chemical binding]; other site 561231013717 Q-loop/lid; other site 561231013718 ABC transporter signature motif; other site 561231013719 Walker B; other site 561231013720 D-loop; other site 561231013721 H-loop/switch region; other site 561231013722 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 561231013723 dimer interface [polypeptide binding]; other site 561231013724 conserved gate region; other site 561231013725 ABC-ATPase subunit interface; other site 561231013726 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 561231013727 ABC-ATPase subunit interface; other site 561231013728 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 561231013729 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 561231013730 active sites [active] 561231013731 tetramer interface [polypeptide binding]; other site 561231013732 HutD; Region: HutD; pfam05962 561231013733 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 561231013734 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561231013735 DNA-binding site [nucleotide binding]; DNA binding site 561231013736 UTRA domain; Region: UTRA; pfam07702 561231013737 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 561231013738 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 561231013739 active site 561231013740 Right handed beta helix region; Region: Beta_helix; pfam13229 561231013741 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 561231013742 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 561231013743 Substrate binding site; other site 561231013744 Mg++ binding site; other site 561231013745 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 561231013746 active site 561231013747 substrate binding site [chemical binding]; other site 561231013748 CoA binding site [chemical binding]; other site 561231013749 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 561231013750 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 561231013751 glutaminase active site [active] 561231013752 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 561231013753 dimer interface [polypeptide binding]; other site 561231013754 active site 561231013755 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 561231013756 dimer interface [polypeptide binding]; other site 561231013757 active site 561231013758 O-methyltransferase; Region: Methyltransf_2; pfam00891 561231013759 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 561231013760 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 561231013761 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 561231013762 putative acyl-acceptor binding pocket; other site 561231013763 Phosphopantetheine attachment site; Region: PP-binding; cl09936 561231013764 acyl carrier protein; Provisional; Region: PRK05350 561231013765 Predicted membrane protein [Function unknown]; Region: COG4648 561231013766 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 561231013767 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561231013768 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561231013769 acyl-activating enzyme (AAE) consensus motif; other site 561231013770 acyl-activating enzyme (AAE) consensus motif; other site 561231013771 active site 561231013772 AMP binding site [chemical binding]; other site 561231013773 CoA binding site [chemical binding]; other site 561231013774 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 561231013775 active site 2 [active] 561231013776 dimer interface [polypeptide binding]; other site 561231013777 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 561231013778 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 561231013779 Ligand binding site; other site 561231013780 Putative Catalytic site; other site 561231013781 DXD motif; other site 561231013782 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 561231013783 putative acyl-acceptor binding pocket; other site 561231013784 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 561231013785 active site 561231013786 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 561231013787 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 561231013788 Predicted exporter [General function prediction only]; Region: COG4258 561231013789 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 561231013790 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 561231013791 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 561231013792 dimer interface [polypeptide binding]; other site 561231013793 active site 561231013794 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 561231013795 putative active site 1 [active] 561231013796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561231013797 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 561231013798 NAD(P) binding site [chemical binding]; other site 561231013799 active site 561231013800 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 561231013801 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 561231013802 dimer interface [polypeptide binding]; other site 561231013803 active site 561231013804 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561231013805 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 561231013806 active site 561231013807 metal binding site [ion binding]; metal-binding site 561231013808 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231013809 substrate binding pocket [chemical binding]; other site 561231013810 membrane-bound complex binding site; other site 561231013811 hinge residues; other site 561231013812 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 561231013813 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 561231013814 dimer interface [polypeptide binding]; other site 561231013815 conserved gate region; other site 561231013816 putative PBP binding loops; other site 561231013817 ABC-ATPase subunit interface; other site 561231013818 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 561231013819 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 561231013820 dimer interface [polypeptide binding]; other site 561231013821 conserved gate region; other site 561231013822 putative PBP binding loops; other site 561231013823 ABC-ATPase subunit interface; other site 561231013824 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 561231013825 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 561231013826 Walker A/P-loop; other site 561231013827 ATP binding site [chemical binding]; other site 561231013828 Q-loop/lid; other site 561231013829 ABC transporter signature motif; other site 561231013830 Walker B; other site 561231013831 D-loop; other site 561231013832 H-loop/switch region; other site 561231013833 transcriptional regulator PhoU; Provisional; Region: PRK11115 561231013834 PhoU domain; Region: PhoU; pfam01895 561231013835 PhoU domain; Region: PhoU; pfam01895 561231013836 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 561231013837 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 561231013838 non-specific DNA binding site [nucleotide binding]; other site 561231013839 salt bridge; other site 561231013840 sequence-specific DNA binding site [nucleotide binding]; other site 561231013841 Cupin domain; Region: Cupin_2; pfam07883 561231013842 benzoate transporter; Region: benE; TIGR00843 561231013843 Benzoate membrane transport protein; Region: BenE; pfam03594 561231013844 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561231013845 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 561231013846 substrate binding pocket [chemical binding]; other site 561231013847 membrane-bound complex binding site; other site 561231013848 hinge residues; other site 561231013849 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 561231013850 dimer interface [polypeptide binding]; other site 561231013851 conserved gate region; other site 561231013852 putative PBP binding loops; other site 561231013853 ABC-ATPase subunit interface; other site 561231013854 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 561231013855 dimer interface [polypeptide binding]; other site 561231013856 conserved gate region; other site 561231013857 putative PBP binding loops; other site 561231013858 ABC-ATPase subunit interface; other site 561231013859 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 561231013860 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 561231013861 active site 561231013862 motif I; other site 561231013863 motif II; other site 561231013864 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 561231013865 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 561231013866 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 561231013867 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 561231013868 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 561231013869 4Fe-4S binding domain; Region: Fer4; pfam00037 561231013870 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 561231013871 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561231013872 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561231013873 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 561231013874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 561231013875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 561231013876 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 561231013877 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 561231013878 putative substrate translocation pore; other site 561231013879 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561231013880 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561231013881 metal binding site [ion binding]; metal-binding site 561231013882 active site 561231013883 I-site; other site 561231013884 WYL domain; Region: WYL; pfam13280 561231013885 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 561231013886 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 561231013887 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 561231013888 putative active site [active] 561231013889 putative metal binding site [ion binding]; other site 561231013890 N-glycosyltransferase; Provisional; Region: PRK11204 561231013891 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 561231013892 DXD motif; other site 561231013893 PgaD-like protein; Region: PgaD; pfam13994 561231013894 Predicted transcriptional regulators [Transcription]; Region: COG1733 561231013895 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 561231013896 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 561231013897 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 561231013898 NADP binding site [chemical binding]; other site 561231013899 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 561231013900 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 561231013901 non-specific DNA binding site [nucleotide binding]; other site 561231013902 salt bridge; other site 561231013903 sequence-specific DNA binding site [nucleotide binding]; other site 561231013904 glutamine-tRNA ligase; Region: PLN02859 561231013905 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 561231013906 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 561231013907 trmE is a tRNA modification GTPase; Region: trmE; cd04164 561231013908 G1 box; other site 561231013909 GTP/Mg2+ binding site [chemical binding]; other site 561231013910 Switch I region; other site 561231013911 G2 box; other site 561231013912 Switch II region; other site 561231013913 G3 box; other site 561231013914 G4 box; other site 561231013915 G5 box; other site 561231013916 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 561231013917 membrane protein insertase; Provisional; Region: PRK01318 561231013918 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 561231013919 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399