-- dump date 20140619_232103 -- class Genbank::misc_feature -- table misc_feature_note -- id note 561230000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 561230000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 561230000003 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 561230000004 Walker A motif; other site 561230000005 ATP binding site [chemical binding]; other site 561230000006 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 561230000007 Walker B motif; other site 561230000008 arginine finger; other site 561230000009 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 561230000010 DnaA box-binding interface [nucleotide binding]; other site 561230000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 561230000012 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 561230000013 putative DNA binding surface [nucleotide binding]; other site 561230000014 dimer interface [polypeptide binding]; other site 561230000015 beta-clamp/clamp loader binding surface; other site 561230000016 beta-clamp/translesion DNA polymerase binding surface; other site 561230000017 recF protein; Region: recf; TIGR00611 561230000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230000019 Walker A/P-loop; other site 561230000020 ATP binding site [chemical binding]; other site 561230000021 Q-loop/lid; other site 561230000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230000023 ABC transporter signature motif; other site 561230000024 Walker B; other site 561230000025 D-loop; other site 561230000026 H-loop/switch region; other site 561230000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 561230000028 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 561230000029 Mg2+ binding site [ion binding]; other site 561230000030 G-X-G motif; other site 561230000031 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 561230000032 anchoring element; other site 561230000033 dimer interface [polypeptide binding]; other site 561230000034 ATP binding site [chemical binding]; other site 561230000035 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 561230000036 active site 561230000037 putative metal-binding site [ion binding]; other site 561230000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 561230000039 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 561230000040 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230000041 putative substrate translocation pore; other site 561230000042 Uncharacterized conserved protein [Function unknown]; Region: COG3791 561230000043 Cache domain; Region: Cache_1; pfam02743 561230000044 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 561230000045 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230000046 dimer interface [polypeptide binding]; other site 561230000047 putative CheW interface [polypeptide binding]; other site 561230000048 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230000049 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230000050 DNA binding site [nucleotide binding] 561230000051 domain linker motif; other site 561230000052 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 561230000053 dimerization interface (closed form) [polypeptide binding]; other site 561230000054 ligand binding site [chemical binding]; other site 561230000055 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 561230000056 active site 561230000057 P-loop; other site 561230000058 phosphorylation site [posttranslational modification] 561230000059 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 561230000060 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 561230000061 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 561230000062 active site 561230000063 methionine cluster; other site 561230000064 phosphorylation site [posttranslational modification] 561230000065 metal binding site [ion binding]; metal-binding site 561230000066 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 561230000067 beta-galactosidase; Region: BGL; TIGR03356 561230000068 sugar phosphate phosphatase; Provisional; Region: PRK10513 561230000069 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 561230000070 active site 561230000071 motif I; other site 561230000072 motif II; other site 561230000073 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561230000074 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 561230000075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230000076 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 561230000077 dimerization interface [polypeptide binding]; other site 561230000078 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561230000079 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 561230000080 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 561230000081 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 561230000082 inhibitor site; inhibition site 561230000083 active site 561230000084 dimer interface [polypeptide binding]; other site 561230000085 catalytic residue [active] 561230000086 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 561230000087 active site 561230000088 tetramer interface [polypeptide binding]; other site 561230000089 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 561230000090 active site 561230000091 tetramer interface [polypeptide binding]; other site 561230000092 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561230000093 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 561230000094 dimer interface [polypeptide binding]; other site 561230000095 conserved gate region; other site 561230000096 putative PBP binding loops; other site 561230000097 ABC-ATPase subunit interface; other site 561230000098 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 561230000099 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 561230000100 dimer interface [polypeptide binding]; other site 561230000101 conserved gate region; other site 561230000102 putative PBP binding loops; other site 561230000103 ABC-ATPase subunit interface; other site 561230000104 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561230000105 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230000106 Walker A/P-loop; other site 561230000107 ATP binding site [chemical binding]; other site 561230000108 Q-loop/lid; other site 561230000109 ABC transporter signature motif; other site 561230000110 Walker B; other site 561230000111 D-loop; other site 561230000112 H-loop/switch region; other site 561230000113 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230000114 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230000115 Walker A/P-loop; other site 561230000116 ATP binding site [chemical binding]; other site 561230000117 Q-loop/lid; other site 561230000118 ABC transporter signature motif; other site 561230000119 Walker B; other site 561230000120 D-loop; other site 561230000121 H-loop/switch region; other site 561230000122 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230000123 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 561230000124 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 561230000125 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561230000126 Walker A/P-loop; other site 561230000127 ATP binding site [chemical binding]; other site 561230000128 Q-loop/lid; other site 561230000129 ABC transporter signature motif; other site 561230000130 Walker B; other site 561230000131 D-loop; other site 561230000132 H-loop/switch region; other site 561230000133 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561230000134 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 561230000135 dimer interface [polypeptide binding]; other site 561230000136 conserved gate region; other site 561230000137 putative PBP binding loops; other site 561230000138 ABC-ATPase subunit interface; other site 561230000139 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 561230000140 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 561230000141 active site 561230000142 dimer interface [polypeptide binding]; other site 561230000143 non-prolyl cis peptide bond; other site 561230000144 insertion regions; other site 561230000145 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 561230000146 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 561230000147 substrate binding pocket [chemical binding]; other site 561230000148 membrane-bound complex binding site; other site 561230000149 hinge residues; other site 561230000150 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 561230000151 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230000152 putative substrate translocation pore; other site 561230000153 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 561230000154 active site 561230000155 P-loop; other site 561230000156 phosphorylation site [posttranslational modification] 561230000157 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 561230000158 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 561230000159 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 561230000160 beta-galactosidase; Region: BGL; TIGR03356 561230000161 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 561230000162 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 561230000163 hypothetical protein; Provisional; Region: PRK11616 561230000164 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 561230000165 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 561230000166 putative dimer interface [polypeptide binding]; other site 561230000167 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 561230000168 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 561230000169 putative dimer interface [polypeptide binding]; other site 561230000170 putative transporter; Validated; Region: PRK03818 561230000171 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 561230000172 TrkA-C domain; Region: TrkA_C; pfam02080 561230000173 TrkA-C domain; Region: TrkA_C; pfam02080 561230000174 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 561230000175 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 561230000176 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 561230000177 transmembrane helices; other site 561230000178 sensory histidine kinase DcuS; Provisional; Region: PRK11086 561230000179 PAS domain; Region: PAS; smart00091 561230000180 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 561230000181 ATP binding site [chemical binding]; other site 561230000182 Mg2+ binding site [ion binding]; other site 561230000183 G-X-G motif; other site 561230000184 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 561230000185 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230000186 active site 561230000187 phosphorylation site [posttranslational modification] 561230000188 intermolecular recognition site; other site 561230000189 dimerization interface [polypeptide binding]; other site 561230000190 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 561230000191 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561230000192 Predicted transcriptional regulators [Transcription]; Region: COG1733 561230000193 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 561230000194 dimerization interface [polypeptide binding]; other site 561230000195 putative DNA binding site [nucleotide binding]; other site 561230000196 putative Zn2+ binding site [ion binding]; other site 561230000197 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 561230000198 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561230000199 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 561230000200 peptide binding site [polypeptide binding]; other site 561230000201 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561230000202 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 561230000203 dimer interface [polypeptide binding]; other site 561230000204 conserved gate region; other site 561230000205 putative PBP binding loops; other site 561230000206 ABC-ATPase subunit interface; other site 561230000207 dipeptide transporter; Provisional; Region: PRK10913 561230000208 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561230000209 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 561230000210 dimer interface [polypeptide binding]; other site 561230000211 conserved gate region; other site 561230000212 putative PBP binding loops; other site 561230000213 ABC-ATPase subunit interface; other site 561230000214 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 561230000215 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230000216 Walker A/P-loop; other site 561230000217 ATP binding site [chemical binding]; other site 561230000218 Q-loop/lid; other site 561230000219 ABC transporter signature motif; other site 561230000220 Walker B; other site 561230000221 D-loop; other site 561230000222 H-loop/switch region; other site 561230000223 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 561230000224 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 561230000225 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230000226 Walker A/P-loop; other site 561230000227 ATP binding site [chemical binding]; other site 561230000228 Q-loop/lid; other site 561230000229 ABC transporter signature motif; other site 561230000230 Walker B; other site 561230000231 D-loop; other site 561230000232 H-loop/switch region; other site 561230000233 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 561230000234 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 561230000235 PAAR motif; Region: PAAR_motif; pfam05488 561230000236 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 561230000237 RHS Repeat; Region: RHS_repeat; cl11982 561230000238 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561230000239 RHS Repeat; Region: RHS_repeat; cl11982 561230000240 RHS Repeat; Region: RHS_repeat; pfam05593 561230000241 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561230000242 YwqJ-like deaminase; Region: YwqJ-deaminase; pfam14431 561230000243 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 561230000244 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561230000245 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561230000246 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561230000247 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561230000248 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 561230000249 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 561230000250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230000251 homodimer interface [polypeptide binding]; other site 561230000252 catalytic residue [active] 561230000253 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 561230000254 active site 561230000255 catalytic residues [active] 561230000256 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 561230000257 EamA-like transporter family; Region: EamA; pfam00892 561230000258 altronate oxidoreductase; Provisional; Region: PRK03643 561230000259 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561230000260 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561230000261 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 561230000262 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 561230000263 putative NAD(P) binding site [chemical binding]; other site 561230000264 catalytic Zn binding site [ion binding]; other site 561230000265 structural Zn binding site [ion binding]; other site 561230000266 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230000267 DNA-binding site [nucleotide binding]; DNA binding site 561230000268 Transcriptional regulators [Transcription]; Region: GntR; COG1802 561230000269 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 561230000270 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 561230000271 D-galactonate transporter; Region: 2A0114; TIGR00893 561230000272 putative substrate translocation pore; other site 561230000273 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 561230000274 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 561230000275 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 561230000276 haemagglutination activity domain; Region: Haemagg_act; pfam05860 561230000277 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561230000278 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 561230000279 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 561230000280 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 561230000281 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 561230000282 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 561230000283 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 561230000284 inhibitor-cofactor binding pocket; inhibition site 561230000285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230000286 catalytic residue [active] 561230000287 ethanolamine permease; Region: 2A0305; TIGR00908 561230000288 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 561230000289 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 561230000290 active site 561230000291 substrate binding site [chemical binding]; other site 561230000292 ATP binding site [chemical binding]; other site 561230000293 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 561230000294 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 561230000295 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230000296 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 561230000297 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561230000298 EamA-like transporter family; Region: EamA; pfam00892 561230000299 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 561230000300 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 561230000301 TPR motif; other site 561230000302 binding surface 561230000303 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 561230000304 binding surface 561230000305 TPR motif; other site 561230000306 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 561230000307 endo-1,4-D-glucanase; Provisional; Region: PRK11097 561230000308 cellulose synthase regulator protein; Provisional; Region: PRK11114 561230000309 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 561230000310 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 561230000311 DXD motif; other site 561230000312 PilZ domain; Region: PilZ; pfam07238 561230000313 YhjQ protein; Region: YhjQ; pfam06564 561230000314 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 561230000315 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 561230000316 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 561230000317 Protein of unknown function (DUF2636); Region: DUF2636; cl11897 561230000318 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 561230000319 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 561230000320 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230000321 metal binding site [ion binding]; metal-binding site 561230000322 active site 561230000323 I-site; other site 561230000324 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 561230000325 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561230000326 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 561230000327 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 561230000328 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561230000329 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561230000330 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 561230000331 substrate binding site [chemical binding]; other site 561230000332 ATP binding site [chemical binding]; other site 561230000333 inner membrane protein YhjD; Region: TIGR00766 561230000334 major facilitator superfamily transporter; Provisional; Region: PRK05122 561230000335 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 561230000336 putative substrate translocation pore; other site 561230000337 hypothetical protein; Provisional; Region: PRK11615 561230000338 hypothetical protein; Provisional; Region: PRK11212 561230000339 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 561230000340 CPxP motif; other site 561230000341 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 561230000342 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 561230000343 metal-binding site [ion binding] 561230000344 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 561230000345 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561230000346 Predicted membrane protein [Function unknown]; Region: COG3714 561230000347 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 561230000348 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 561230000349 hypothetical protein; Provisional; Region: PRK10910 561230000350 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 561230000351 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 561230000352 S-adenosylmethionine binding site [chemical binding]; other site 561230000353 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 561230000354 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 561230000355 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 561230000356 P loop; other site 561230000357 GTP binding site [chemical binding]; other site 561230000358 cell division protein FtsE; Provisional; Region: PRK10908 561230000359 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230000360 Walker A/P-loop; other site 561230000361 ATP binding site [chemical binding]; other site 561230000362 Q-loop/lid; other site 561230000363 ABC transporter signature motif; other site 561230000364 Walker B; other site 561230000365 D-loop; other site 561230000366 H-loop/switch region; other site 561230000367 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 561230000368 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 561230000369 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 561230000370 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230000371 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 561230000372 DNA binding residues [nucleotide binding] 561230000373 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230000374 Coenzyme A binding pocket [chemical binding]; other site 561230000375 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 561230000376 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 561230000377 dimerization interface [polypeptide binding]; other site 561230000378 ligand binding site [chemical binding]; other site 561230000379 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230000380 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 561230000381 TM-ABC transporter signature motif; other site 561230000382 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 561230000383 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 561230000384 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 561230000385 TM-ABC transporter signature motif; other site 561230000386 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 561230000387 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 561230000388 Walker A/P-loop; other site 561230000389 ATP binding site [chemical binding]; other site 561230000390 Q-loop/lid; other site 561230000391 ABC transporter signature motif; other site 561230000392 Walker B; other site 561230000393 D-loop; other site 561230000394 H-loop/switch region; other site 561230000395 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 561230000396 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 561230000397 Walker A/P-loop; other site 561230000398 ATP binding site [chemical binding]; other site 561230000399 Q-loop/lid; other site 561230000400 ABC transporter signature motif; other site 561230000401 Walker B; other site 561230000402 D-loop; other site 561230000403 H-loop/switch region; other site 561230000404 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 561230000405 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 561230000406 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230000407 homodimer interface [polypeptide binding]; other site 561230000408 catalytic residue [active] 561230000409 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230000410 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561230000411 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 561230000412 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230000413 dimer interface [polypeptide binding]; other site 561230000414 putative CheW interface [polypeptide binding]; other site 561230000415 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230000416 HAMP domain; Region: HAMP; pfam00672 561230000417 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561230000418 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230000419 dimer interface [polypeptide binding]; other site 561230000420 putative CheW interface [polypeptide binding]; other site 561230000421 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230000422 HAMP domain; Region: HAMP; pfam00672 561230000423 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561230000424 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230000425 dimer interface [polypeptide binding]; other site 561230000426 putative CheW interface [polypeptide binding]; other site 561230000427 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230000428 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561230000429 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230000430 dimer interface [polypeptide binding]; other site 561230000431 putative CheW interface [polypeptide binding]; other site 561230000432 putative transporter; Provisional; Region: PRK09821 561230000433 GntP family permease; Region: GntP_permease; pfam02447 561230000434 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 561230000435 putative aldolase; Validated; Region: PRK08130 561230000436 intersubunit interface [polypeptide binding]; other site 561230000437 active site 561230000438 Zn2+ binding site [ion binding]; other site 561230000439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 561230000440 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 561230000441 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 561230000442 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561230000443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230000444 DNA-binding site [nucleotide binding]; DNA binding site 561230000445 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561230000446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 561230000447 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 561230000448 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 561230000449 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 561230000450 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561230000451 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 561230000452 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 561230000453 dimer interface [polypeptide binding]; other site 561230000454 conserved gate region; other site 561230000455 putative PBP binding loops; other site 561230000456 ABC-ATPase subunit interface; other site 561230000457 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561230000458 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 561230000459 dimer interface [polypeptide binding]; other site 561230000460 conserved gate region; other site 561230000461 putative PBP binding loops; other site 561230000462 ABC-ATPase subunit interface; other site 561230000463 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561230000464 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561230000465 Walker A/P-loop; other site 561230000466 ATP binding site [chemical binding]; other site 561230000467 Q-loop/lid; other site 561230000468 ABC transporter signature motif; other site 561230000469 Walker B; other site 561230000470 D-loop; other site 561230000471 H-loop/switch region; other site 561230000472 TOBE domain; Region: TOBE_2; pfam08402 561230000473 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 561230000474 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 561230000475 putative active site [active] 561230000476 catalytic site [active] 561230000477 putative metal binding site [ion binding]; other site 561230000478 Predicted permeases [General function prediction only]; Region: COG0679 561230000479 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 561230000480 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 561230000481 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 561230000482 two-component sensor protein; Provisional; Region: cpxA; PRK09470 561230000483 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 561230000484 dimerization interface [polypeptide binding]; other site 561230000485 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 561230000486 dimer interface [polypeptide binding]; other site 561230000487 phosphorylation site [posttranslational modification] 561230000488 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 561230000489 ATP binding site [chemical binding]; other site 561230000490 Mg2+ binding site [ion binding]; other site 561230000491 G-X-G motif; other site 561230000492 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 561230000493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230000494 active site 561230000495 phosphorylation site [posttranslational modification] 561230000496 intermolecular recognition site; other site 561230000497 dimerization interface [polypeptide binding]; other site 561230000498 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 561230000499 DNA binding site [nucleotide binding] 561230000500 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 561230000501 dimer interface [polypeptide binding]; other site 561230000502 putative arabinose transporter; Provisional; Region: PRK03545 561230000503 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 561230000504 putative substrate translocation pore; other site 561230000505 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 561230000506 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 561230000507 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 561230000508 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 561230000509 active site 561230000510 ADP/pyrophosphate binding site [chemical binding]; other site 561230000511 dimerization interface [polypeptide binding]; other site 561230000512 allosteric effector site; other site 561230000513 fructose-1,6-bisphosphate binding site; other site 561230000514 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230000515 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230000516 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 561230000517 dimerization interface [polypeptide binding]; other site 561230000518 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 561230000519 N-terminal plug; other site 561230000520 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561230000521 ligand-binding site [chemical binding]; other site 561230000522 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561230000523 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 561230000524 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 561230000525 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 561230000526 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 561230000527 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 561230000528 TolR protein; Region: tolR; TIGR02801 561230000529 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561230000530 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 561230000531 dimer interface [polypeptide binding]; other site 561230000532 conserved gate region; other site 561230000533 putative PBP binding loops; other site 561230000534 ABC-ATPase subunit interface; other site 561230000535 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561230000536 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 561230000537 dimer interface [polypeptide binding]; other site 561230000538 conserved gate region; other site 561230000539 putative PBP binding loops; other site 561230000540 ABC-ATPase subunit interface; other site 561230000541 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561230000542 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561230000543 Walker A/P-loop; other site 561230000544 ATP binding site [chemical binding]; other site 561230000545 Q-loop/lid; other site 561230000546 ABC transporter signature motif; other site 561230000547 Walker B; other site 561230000548 D-loop; other site 561230000549 H-loop/switch region; other site 561230000550 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 561230000551 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 561230000552 putative active site; other site 561230000553 catalytic triad [active] 561230000554 putative dimer interface [polypeptide binding]; other site 561230000555 agmatine deiminase; Provisional; Region: PRK13551 561230000556 agmatine deiminase; Region: agmatine_aguA; TIGR03380 561230000557 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 561230000558 triosephosphate isomerase; Provisional; Region: PRK14567 561230000559 substrate binding site [chemical binding]; other site 561230000560 dimer interface [polypeptide binding]; other site 561230000561 catalytic triad [active] 561230000562 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 561230000563 Predicted membrane protein [Function unknown]; Region: COG3152 561230000564 ferredoxin-NADP reductase; Provisional; Region: PRK10926 561230000565 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 561230000566 FAD binding pocket [chemical binding]; other site 561230000567 FAD binding motif [chemical binding]; other site 561230000568 phosphate binding motif [ion binding]; other site 561230000569 beta-alpha-beta structure motif; other site 561230000570 NAD binding pocket [chemical binding]; other site 561230000571 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 561230000572 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 561230000573 putative active site [active] 561230000574 glycerol kinase; Provisional; Region: glpK; PRK00047 561230000575 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 561230000576 N- and C-terminal domain interface [polypeptide binding]; other site 561230000577 active site 561230000578 MgATP binding site [chemical binding]; other site 561230000579 catalytic site [active] 561230000580 metal binding site [ion binding]; metal-binding site 561230000581 glycerol binding site [chemical binding]; other site 561230000582 homotetramer interface [polypeptide binding]; other site 561230000583 homodimer interface [polypeptide binding]; other site 561230000584 FBP binding site [chemical binding]; other site 561230000585 protein IIAGlc interface [polypeptide binding]; other site 561230000586 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 561230000587 amphipathic channel; other site 561230000588 Asn-Pro-Ala signature motifs; other site 561230000589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 561230000590 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 561230000591 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 561230000592 UbiA prenyltransferase family; Region: UbiA; pfam01040 561230000593 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 561230000594 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 561230000595 Walker A motif; other site 561230000596 ATP binding site [chemical binding]; other site 561230000597 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 561230000598 Walker B motif; other site 561230000599 arginine finger; other site 561230000600 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 561230000601 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 561230000602 active site 561230000603 HslU subunit interaction site [polypeptide binding]; other site 561230000604 essential cell division protein FtsN; Provisional; Region: PRK10927 561230000605 cell division protein FtsN; Provisional; Region: PRK12757 561230000606 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230000607 DNA binding site [nucleotide binding] 561230000608 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 561230000609 domain linker motif; other site 561230000610 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 561230000611 dimerization interface [polypeptide binding]; other site 561230000612 ligand binding site [chemical binding]; other site 561230000613 primosome assembly protein PriA; Validated; Region: PRK05580 561230000614 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 561230000615 ATP binding site [chemical binding]; other site 561230000616 putative Mg++ binding site [ion binding]; other site 561230000617 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 561230000618 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 561230000619 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 561230000620 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 561230000621 YcfA-like protein; Region: YcfA; pfam07927 561230000622 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561230000623 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 561230000624 ABC-ATPase subunit interface; other site 561230000625 dimer interface [polypeptide binding]; other site 561230000626 putative PBP binding regions; other site 561230000627 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 561230000628 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 561230000629 putative ligand binding residues [chemical binding]; other site 561230000630 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561230000631 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 561230000632 Walker A/P-loop; other site 561230000633 ATP binding site [chemical binding]; other site 561230000634 Q-loop/lid; other site 561230000635 ABC transporter signature motif; other site 561230000636 Walker B; other site 561230000637 D-loop; other site 561230000638 H-loop/switch region; other site 561230000639 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 561230000640 dimerization interface [polypeptide binding]; other site 561230000641 DNA binding site [nucleotide binding] 561230000642 corepressor binding sites; other site 561230000643 cystathionine gamma-synthase; Provisional; Region: PRK08045 561230000644 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 561230000645 homodimer interface [polypeptide binding]; other site 561230000646 substrate-cofactor binding pocket; other site 561230000647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230000648 catalytic residue [active] 561230000649 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 561230000650 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 561230000651 putative catalytic residues [active] 561230000652 putative nucleotide binding site [chemical binding]; other site 561230000653 putative aspartate binding site [chemical binding]; other site 561230000654 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 561230000655 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 561230000656 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 561230000657 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230000658 Walker A/P-loop; other site 561230000659 ATP binding site [chemical binding]; other site 561230000660 Q-loop/lid; other site 561230000661 ABC transporter signature motif; other site 561230000662 Walker B; other site 561230000663 D-loop; other site 561230000664 H-loop/switch region; other site 561230000665 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561230000666 hypothetical protein; Provisional; Region: PRK11622 561230000667 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 561230000668 dimer interface [polypeptide binding]; other site 561230000669 conserved gate region; other site 561230000670 putative PBP binding loops; other site 561230000671 ABC-ATPase subunit interface; other site 561230000672 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 561230000673 dimer interface [polypeptide binding]; other site 561230000674 conserved gate region; other site 561230000675 putative PBP binding loops; other site 561230000676 ABC-ATPase subunit interface; other site 561230000677 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230000678 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230000679 domain linker motif; other site 561230000680 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 561230000681 putative dimerization interface [polypeptide binding]; other site 561230000682 putative ligand binding site [chemical binding]; other site 561230000683 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 561230000684 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561230000685 active site 561230000686 metal binding site [ion binding]; metal-binding site 561230000687 hexamer interface [polypeptide binding]; other site 561230000688 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 561230000689 FAD binding site [chemical binding]; other site 561230000690 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 561230000691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230000692 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 561230000693 dimerization interface [polypeptide binding]; other site 561230000694 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 561230000695 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230000696 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 561230000697 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 561230000698 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230000699 hypothetical protein; Provisional; Region: PRK11056 561230000700 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 561230000701 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 561230000702 S-adenosylmethionine binding site [chemical binding]; other site 561230000703 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 561230000704 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 561230000705 N-terminal plug; other site 561230000706 ligand-binding site [chemical binding]; other site 561230000707 glutamate racemase; Provisional; Region: PRK00865 561230000708 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 561230000709 FAD binding domain; Region: FAD_binding_4; pfam01565 561230000710 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 561230000711 Biotin operon repressor [Transcription]; Region: BirA; COG1654 561230000712 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 561230000713 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 561230000714 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 561230000715 pantothenate kinase; Provisional; Region: PRK05439 561230000716 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 561230000717 ATP-binding site [chemical binding]; other site 561230000718 CoA-binding site [chemical binding]; other site 561230000719 Mg2+-binding site [ion binding]; other site 561230000720 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 561230000721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230000722 Coenzyme A binding pocket [chemical binding]; other site 561230000723 elongation factor Tu; Reviewed; Region: PRK00049 561230000724 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 561230000725 G1 box; other site 561230000726 GEF interaction site [polypeptide binding]; other site 561230000727 GTP/Mg2+ binding site [chemical binding]; other site 561230000728 Switch I region; other site 561230000729 G2 box; other site 561230000730 G3 box; other site 561230000731 Switch II region; other site 561230000732 G4 box; other site 561230000733 G5 box; other site 561230000734 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 561230000735 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 561230000736 Antibiotic Binding Site [chemical binding]; other site 561230000737 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 561230000738 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 561230000739 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 561230000740 putative homodimer interface [polypeptide binding]; other site 561230000741 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 561230000742 heterodimer interface [polypeptide binding]; other site 561230000743 homodimer interface [polypeptide binding]; other site 561230000744 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 561230000745 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 561230000746 23S rRNA interface [nucleotide binding]; other site 561230000747 L7/L12 interface [polypeptide binding]; other site 561230000748 putative thiostrepton binding site; other site 561230000749 L25 interface [polypeptide binding]; other site 561230000750 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 561230000751 mRNA/rRNA interface [nucleotide binding]; other site 561230000752 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 561230000753 23S rRNA interface [nucleotide binding]; other site 561230000754 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 561230000755 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 561230000756 core dimer interface [polypeptide binding]; other site 561230000757 peripheral dimer interface [polypeptide binding]; other site 561230000758 L10 interface [polypeptide binding]; other site 561230000759 L11 interface [polypeptide binding]; other site 561230000760 putative EF-Tu interaction site [polypeptide binding]; other site 561230000761 putative EF-G interaction site [polypeptide binding]; other site 561230000762 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 561230000763 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 561230000764 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 561230000765 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 561230000766 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 561230000767 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 561230000768 RPB3 interaction site [polypeptide binding]; other site 561230000769 RPB1 interaction site [polypeptide binding]; other site 561230000770 RPB11 interaction site [polypeptide binding]; other site 561230000771 RPB10 interaction site [polypeptide binding]; other site 561230000772 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 561230000773 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 561230000774 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 561230000775 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 561230000776 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 561230000777 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 561230000778 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 561230000779 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 561230000780 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 561230000781 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 561230000782 DNA binding site [nucleotide binding] 561230000783 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 561230000784 shikimate transporter; Provisional; Region: PRK09952 561230000785 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 561230000786 putative substrate translocation pore; other site 561230000787 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 561230000788 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 561230000789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230000790 DNA-binding site [nucleotide binding]; DNA binding site 561230000791 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 561230000792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230000793 homodimer interface [polypeptide binding]; other site 561230000794 catalytic residue [active] 561230000795 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 561230000796 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 561230000797 FeS/SAM binding site; other site 561230000798 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 561230000799 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 561230000800 ThiS interaction site; other site 561230000801 putative active site [active] 561230000802 tetramer interface [polypeptide binding]; other site 561230000803 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 561230000804 thiS-thiF/thiG interaction site; other site 561230000805 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 561230000806 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 561230000807 ATP binding site [chemical binding]; other site 561230000808 substrate interface [chemical binding]; other site 561230000809 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 561230000810 thiamine phosphate binding site [chemical binding]; other site 561230000811 active site 561230000812 pyrophosphate binding site [ion binding]; other site 561230000813 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 561230000814 ThiC-associated domain; Region: ThiC-associated; pfam13667 561230000815 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 561230000816 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 561230000817 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 561230000818 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 561230000819 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 561230000820 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 561230000821 putative NADH binding site [chemical binding]; other site 561230000822 putative active site [active] 561230000823 nudix motif; other site 561230000824 putative metal binding site [ion binding]; other site 561230000825 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 561230000826 substrate binding site [chemical binding]; other site 561230000827 active site 561230000828 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 561230000829 Active_site [active] 561230000830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 561230000831 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 561230000832 IHF dimer interface [polypeptide binding]; other site 561230000833 IHF - DNA interface [nucleotide binding]; other site 561230000834 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 561230000835 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 561230000836 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 561230000837 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 561230000838 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 561230000839 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 561230000840 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 561230000841 purine monophosphate binding site [chemical binding]; other site 561230000842 dimer interface [polypeptide binding]; other site 561230000843 putative catalytic residues [active] 561230000844 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 561230000845 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 561230000846 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561230000847 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561230000848 Walker A/P-loop; other site 561230000849 ATP binding site [chemical binding]; other site 561230000850 Q-loop/lid; other site 561230000851 ABC transporter signature motif; other site 561230000852 Walker B; other site 561230000853 D-loop; other site 561230000854 H-loop/switch region; other site 561230000855 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 561230000856 dimer interface [polypeptide binding]; other site 561230000857 conserved gate region; other site 561230000858 putative PBP binding loops; other site 561230000859 ABC-ATPase subunit interface; other site 561230000860 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 561230000861 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 561230000862 conserved gate region; other site 561230000863 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 561230000864 dimer interface [polypeptide binding]; other site 561230000865 ABC-ATPase subunit interface; other site 561230000866 putative PBP binding loops; other site 561230000867 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 561230000868 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 561230000869 substrate binding pocket [chemical binding]; other site 561230000870 membrane-bound complex binding site; other site 561230000871 hinge residues; other site 561230000872 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230000873 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 561230000874 dimer interface [polypeptide binding]; other site 561230000875 conserved gate region; other site 561230000876 putative PBP binding loops; other site 561230000877 ABC-ATPase subunit interface; other site 561230000878 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561230000879 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 561230000880 substrate binding pocket [chemical binding]; other site 561230000881 membrane-bound complex binding site; other site 561230000882 hinge residues; other site 561230000883 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 561230000884 putative catalytic site [active] 561230000885 putative metal binding site [ion binding]; other site 561230000886 putative phosphate binding site [ion binding]; other site 561230000887 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 561230000888 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 561230000889 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 561230000890 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 561230000891 DNA binding site [nucleotide binding] 561230000892 active site 561230000893 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 561230000894 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 561230000895 tetramer interface [polypeptide binding]; other site 561230000896 active site 561230000897 Mg2+/Mn2+ binding site [ion binding]; other site 561230000898 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 561230000899 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 561230000900 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 561230000901 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 561230000902 FMN binding site [chemical binding]; other site 561230000903 active site 561230000904 catalytic residues [active] 561230000905 substrate binding site [chemical binding]; other site 561230000906 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 561230000907 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 561230000908 active site 561230000909 zinc binding site [ion binding]; other site 561230000910 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 561230000911 Methyltransferase domain; Region: Methyltransf_18; pfam12847 561230000912 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 561230000913 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 561230000914 Na binding site [ion binding]; other site 561230000915 hypothetical protein; Provisional; Region: PRK10633 561230000916 molybdenum-pterin binding domain; Region: Mop; TIGR00638 561230000917 molybdenum-pterin binding domain; Region: Mop; TIGR00638 561230000918 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 561230000919 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561230000920 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 561230000921 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 561230000922 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 561230000923 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 561230000924 carboxyltransferase (CT) interaction site; other site 561230000925 biotinylation site [posttranslational modification]; other site 561230000926 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 561230000927 Dehydroquinase class II; Region: DHquinase_II; pfam01220 561230000928 active site 561230000929 trimer interface [polypeptide binding]; other site 561230000930 dimer interface [polypeptide binding]; other site 561230000931 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 561230000932 TMAO/DMSO reductase; Reviewed; Region: PRK05363 561230000933 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 561230000934 Moco binding site; other site 561230000935 metal coordination site [ion binding]; other site 561230000936 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 561230000937 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 561230000938 NADP binding site [chemical binding]; other site 561230000939 dimer interface [polypeptide binding]; other site 561230000940 regulatory protein CsrD; Provisional; Region: PRK11059 561230000941 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230000942 metal binding site [ion binding]; metal-binding site 561230000943 active site 561230000944 I-site; other site 561230000945 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 561230000946 rod shape-determining protein MreB; Provisional; Region: PRK13927 561230000947 MreB and similar proteins; Region: MreB_like; cd10225 561230000948 nucleotide binding site [chemical binding]; other site 561230000949 Mg binding site [ion binding]; other site 561230000950 putative protofilament interaction site [polypeptide binding]; other site 561230000951 RodZ interaction site [polypeptide binding]; other site 561230000952 rod shape-determining protein MreC; Region: mreC; TIGR00219 561230000953 rod shape-determining protein MreC; Region: MreC; pfam04085 561230000954 rod shape-determining protein MreD; Provisional; Region: PRK11060 561230000955 Maf-like protein; Region: Maf; pfam02545 561230000956 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 561230000957 active site 561230000958 dimer interface [polypeptide binding]; other site 561230000959 ribonuclease G; Provisional; Region: PRK11712 561230000960 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 561230000961 homodimer interface [polypeptide binding]; other site 561230000962 oligonucleotide binding site [chemical binding]; other site 561230000963 hypothetical protein; Provisional; Region: PRK10899 561230000964 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 561230000965 protease TldD; Provisional; Region: tldD; PRK10735 561230000966 transcriptional regulator; Provisional; Region: PRK10632 561230000967 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230000968 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 561230000969 putative effector binding pocket; other site 561230000970 dimerization interface [polypeptide binding]; other site 561230000971 efflux system membrane protein; Provisional; Region: PRK11594 561230000972 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 561230000973 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230000974 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230000975 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 561230000976 succinic semialdehyde dehydrogenase; Region: PLN02278 561230000977 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 561230000978 tetramerization interface [polypeptide binding]; other site 561230000979 NAD(P) binding site [chemical binding]; other site 561230000980 catalytic residues [active] 561230000981 hypothetical protein; Provisional; Region: PRK05255 561230000982 peptidase PmbA; Provisional; Region: PRK11040 561230000983 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 561230000984 Cytochrome P450; Region: p450; cl12078 561230000985 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 561230000986 Flavodoxin; Region: Flavodoxin_1; pfam00258 561230000987 These bifunctional proteins fuse N-terminal cytochrome p450 with a cytochrome p450 reductase (CYPOR). NADPH cytochrome p450 reductase serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine...; Region: bifunctional_CYPOR; cd06206 561230000988 FAD binding pocket [chemical binding]; other site 561230000989 FAD binding motif [chemical binding]; other site 561230000990 catalytic residues [active] 561230000991 NAD binding pocket [chemical binding]; other site 561230000992 phosphate binding motif [ion binding]; other site 561230000993 beta-alpha-beta structure motif; other site 561230000994 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 561230000995 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 561230000996 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 561230000997 dimerization domain swap beta strand [polypeptide binding]; other site 561230000998 regulatory protein interface [polypeptide binding]; other site 561230000999 active site 561230001000 regulatory phosphorylation site [posttranslational modification]; other site 561230001001 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 561230001002 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 561230001003 active site 561230001004 phosphorylation site [posttranslational modification] 561230001005 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 561230001006 30S subunit binding site; other site 561230001007 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 561230001008 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 561230001009 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 561230001010 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 561230001011 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 561230001012 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 561230001013 Walker A/P-loop; other site 561230001014 ATP binding site [chemical binding]; other site 561230001015 Q-loop/lid; other site 561230001016 ABC transporter signature motif; other site 561230001017 Walker B; other site 561230001018 D-loop; other site 561230001019 H-loop/switch region; other site 561230001020 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 561230001021 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 561230001022 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 561230001023 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 561230001024 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 561230001025 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 561230001026 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 561230001027 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 561230001028 putative active site [active] 561230001029 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 561230001030 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 561230001031 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 561230001032 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 561230001033 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 561230001034 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 561230001035 Walker A/P-loop; other site 561230001036 ATP binding site [chemical binding]; other site 561230001037 Q-loop/lid; other site 561230001038 ABC transporter signature motif; other site 561230001039 Walker B; other site 561230001040 D-loop; other site 561230001041 H-loop/switch region; other site 561230001042 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 561230001043 conserved hypothetical integral membrane protein; Region: TIGR00056 561230001044 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 561230001045 mce related protein; Region: MCE; pfam02470 561230001046 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 561230001047 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 561230001048 anti sigma factor interaction site; other site 561230001049 regulatory phosphorylation site [posttranslational modification]; other site 561230001050 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 561230001051 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 561230001052 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 561230001053 hinge; other site 561230001054 active site 561230001055 serine endoprotease; Provisional; Region: PRK10898 561230001056 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 561230001057 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 561230001058 protein binding site [polypeptide binding]; other site 561230001059 serine endoprotease; Provisional; Region: PRK10139 561230001060 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 561230001061 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 561230001062 protein binding site [polypeptide binding]; other site 561230001063 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 561230001064 hypothetical protein; Provisional; Region: PRK11677 561230001065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 561230001066 Predicted ATPase [General function prediction only]; Region: COG1485 561230001067 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 561230001068 23S rRNA interface [nucleotide binding]; other site 561230001069 L3 interface [polypeptide binding]; other site 561230001070 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 561230001071 stringent starvation protein A; Provisional; Region: sspA; PRK09481 561230001072 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 561230001073 C-terminal domain interface [polypeptide binding]; other site 561230001074 putative GSH binding site (G-site) [chemical binding]; other site 561230001075 dimer interface [polypeptide binding]; other site 561230001076 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 561230001077 dimer interface [polypeptide binding]; other site 561230001078 N-terminal domain interface [polypeptide binding]; other site 561230001079 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 561230001080 acetoin reductase; Validated; Region: PRK08643 561230001081 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 561230001082 NAD binding site [chemical binding]; other site 561230001083 homotetramer interface [polypeptide binding]; other site 561230001084 homodimer interface [polypeptide binding]; other site 561230001085 active site 561230001086 substrate binding site [chemical binding]; other site 561230001087 Uncharacterized conserved protein [Function unknown]; Region: COG3791 561230001088 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 561230001089 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561230001090 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230001091 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 561230001092 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 561230001093 active site 561230001094 dimer interface [polypeptide binding]; other site 561230001095 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 561230001096 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 561230001097 active site 561230001098 FMN binding site [chemical binding]; other site 561230001099 substrate binding site [chemical binding]; other site 561230001100 3Fe-4S cluster binding site [ion binding]; other site 561230001101 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 561230001102 domain interface; other site 561230001103 radical SAM protein, TIGR01212 family; Region: TIGR01212 561230001104 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 561230001105 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 561230001106 putative active site [active] 561230001107 heme pocket [chemical binding]; other site 561230001108 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 561230001109 dimer interface [polypeptide binding]; other site 561230001110 phosphorylation site [posttranslational modification] 561230001111 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 561230001112 ATP binding site [chemical binding]; other site 561230001113 Mg2+ binding site [ion binding]; other site 561230001114 G-X-G motif; other site 561230001115 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230001116 active site 561230001117 phosphorylation site [posttranslational modification] 561230001118 intermolecular recognition site; other site 561230001119 dimerization interface [polypeptide binding]; other site 561230001120 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 561230001121 putative binding surface; other site 561230001122 active site 561230001123 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 561230001124 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 561230001125 conserved cys residue [active] 561230001126 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 561230001127 Transglycosylase; Region: Transgly; cl17702 561230001128 Alginate lyase; Region: Alginate_lyase; pfam05426 561230001129 outer membrane lipoprotein; Provisional; Region: PRK11023 561230001130 BON domain; Region: BON; pfam04972 561230001131 BON domain; Region: BON; pfam04972 561230001132 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 561230001133 dimer interface [polypeptide binding]; other site 561230001134 active site 561230001135 hypothetical protein; Reviewed; Region: PRK12497 561230001136 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 561230001137 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 561230001138 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 561230001139 putative ligand binding site [chemical binding]; other site 561230001140 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 561230001141 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 561230001142 putative SAM binding site [chemical binding]; other site 561230001143 putative homodimer interface [polypeptide binding]; other site 561230001144 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 561230001145 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 561230001146 putative active site [active] 561230001147 metal binding site [ion binding]; metal-binding site 561230001148 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 561230001149 hypothetical protein; Provisional; Region: PRK11653 561230001150 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 561230001151 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 561230001152 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 561230001153 dimer interface [polypeptide binding]; other site 561230001154 ADP-ribose binding site [chemical binding]; other site 561230001155 active site 561230001156 nudix motif; other site 561230001157 metal binding site [ion binding]; metal-binding site 561230001158 putative dehydrogenase; Provisional; Region: PRK11039 561230001159 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 561230001160 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561230001161 active site 561230001162 metal binding site [ion binding]; metal-binding site 561230001163 hexamer interface [polypeptide binding]; other site 561230001164 esterase YqiA; Provisional; Region: PRK11071 561230001165 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561230001166 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 561230001167 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 561230001168 ATP binding site [chemical binding]; other site 561230001169 Mg2+ binding site [ion binding]; other site 561230001170 G-X-G motif; other site 561230001171 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 561230001172 anchoring element; other site 561230001173 dimer interface [polypeptide binding]; other site 561230001174 ATP binding site [chemical binding]; other site 561230001175 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 561230001176 active site 561230001177 metal binding site [ion binding]; metal-binding site 561230001178 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 561230001179 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 561230001180 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561230001181 active site 561230001182 catalytic tetrad [active] 561230001183 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230001184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230001185 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 561230001186 dimerization interface [polypeptide binding]; other site 561230001187 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 561230001188 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 561230001189 intersubunit interface [polypeptide binding]; other site 561230001190 active site 561230001191 zinc binding site [ion binding]; other site 561230001192 Na+ binding site [ion binding]; other site 561230001193 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 561230001194 intersubunit interface [polypeptide binding]; other site 561230001195 active site 561230001196 zinc binding site [ion binding]; other site 561230001197 Na+ binding site [ion binding]; other site 561230001198 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 561230001199 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 561230001200 active site 561230001201 P-loop; other site 561230001202 phosphorylation site [posttranslational modification] 561230001203 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 561230001204 active site 561230001205 phosphorylation site [posttranslational modification] 561230001206 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 561230001207 HTH domain; Region: HTH_11; pfam08279 561230001208 Mga helix-turn-helix domain; Region: Mga; pfam05043 561230001209 PRD domain; Region: PRD; pfam00874 561230001210 PRD domain; Region: PRD; pfam00874 561230001211 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 561230001212 active site 561230001213 P-loop; other site 561230001214 phosphorylation site [posttranslational modification] 561230001215 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 561230001216 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 561230001217 N-terminal plug; other site 561230001218 ligand-binding site [chemical binding]; other site 561230001219 Infectious salmon anaemia virus haemagglutinin; Region: ISAV_HA; pfam06215 561230001220 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 561230001221 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 561230001222 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 561230001223 CAP-like domain; other site 561230001224 active site 561230001225 primary dimer interface [polypeptide binding]; other site 561230001226 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 561230001227 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 561230001228 putative acyl-acceptor binding pocket; other site 561230001229 FtsI repressor; Provisional; Region: PRK10883 561230001230 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 561230001231 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 561230001232 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 561230001233 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230001234 DNA-binding site [nucleotide binding]; DNA binding site 561230001235 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 561230001236 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 561230001237 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561230001238 active site 561230001239 catalytic tetrad [active] 561230001240 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 561230001241 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 561230001242 dimer interface [polypeptide binding]; other site 561230001243 active site 561230001244 metal binding site [ion binding]; metal-binding site 561230001245 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 561230001246 dimer interface [polypeptide binding]; other site 561230001247 FMN binding site [chemical binding]; other site 561230001248 NADPH bind site [chemical binding]; other site 561230001249 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 561230001250 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 561230001251 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230001252 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230001253 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561230001254 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 561230001255 cystathionine beta-lyase; Provisional; Region: PRK08114 561230001256 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 561230001257 homodimer interface [polypeptide binding]; other site 561230001258 substrate-cofactor binding pocket; other site 561230001259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230001260 catalytic residue [active] 561230001261 DctM-like transporters; Region: DctM; pfam06808 561230001262 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 561230001263 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 561230001264 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 561230001265 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 561230001266 biopolymer transport protein ExbB; Provisional; Region: PRK10414 561230001267 biopolymer transport protein ExbD; Provisional; Region: PRK11267 561230001268 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 561230001269 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 561230001270 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230001271 DNA binding site [nucleotide binding] 561230001272 domain linker motif; other site 561230001273 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 561230001274 dimerization interface [polypeptide binding]; other site 561230001275 ligand binding site [chemical binding]; other site 561230001276 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 561230001277 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 561230001278 substrate binding [chemical binding]; other site 561230001279 active site 561230001280 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 561230001281 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 561230001282 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 561230001283 active site turn [active] 561230001284 phosphorylation site [posttranslational modification] 561230001285 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561230001286 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 561230001287 trimer interface; other site 561230001288 sugar binding site [chemical binding]; other site 561230001289 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561230001290 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 561230001291 putative substrate binding site [chemical binding]; other site 561230001292 putative ATP binding site [chemical binding]; other site 561230001293 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 561230001294 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 561230001295 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 561230001296 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230001297 catalytic residue [active] 561230001298 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561230001299 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 561230001300 putative substrate translocation pore; other site 561230001301 Predicted transcriptional regulators [Transcription]; Region: COG1733 561230001302 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 561230001303 hypothetical protein; Provisional; Region: PRK03467 561230001304 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 561230001305 NADH(P)-binding; Region: NAD_binding_10; pfam13460 561230001306 NAD binding site [chemical binding]; other site 561230001307 active site 561230001308 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 561230001309 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 561230001310 FeS/SAM binding site; other site 561230001311 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 561230001312 ATP cone domain; Region: ATP-cone; pfam03477 561230001313 Class III ribonucleotide reductase; Region: RNR_III; cd01675 561230001314 effector binding site; other site 561230001315 active site 561230001316 Zn binding site [ion binding]; other site 561230001317 glycine loop; other site 561230001318 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 561230001319 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 561230001320 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 561230001321 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 561230001322 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 561230001323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 561230001324 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 561230001325 Uncharacterized conserved protein [Function unknown]; Region: COG2308 561230001326 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 561230001327 homotrimer interaction site [polypeptide binding]; other site 561230001328 putative active site [active] 561230001329 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 561230001330 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 561230001331 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 561230001332 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 561230001333 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 561230001334 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 561230001335 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 561230001336 PAS fold; Region: PAS_4; pfam08448 561230001337 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 561230001338 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 561230001339 DNA binding residues [nucleotide binding] 561230001340 PAS fold; Region: PAS_4; pfam08448 561230001341 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; cl17315 561230001342 DNA binding residues [nucleotide binding] 561230001343 dimerization interface [polypeptide binding]; other site 561230001344 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 561230001345 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 561230001346 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 561230001347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 561230001348 RNase E inhibitor protein; Provisional; Region: PRK11191 561230001349 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 561230001350 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230001351 Coenzyme A binding pocket [chemical binding]; other site 561230001352 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 561230001353 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 561230001354 hypothetical protein; Provisional; Region: PRK06489 561230001355 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 561230001356 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561230001357 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 561230001358 dimerization interface [polypeptide binding]; other site 561230001359 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561230001360 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230001361 dimer interface [polypeptide binding]; other site 561230001362 putative CheW interface [polypeptide binding]; other site 561230001363 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 561230001364 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 561230001365 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 561230001366 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 561230001367 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 561230001368 HIGH motif; other site 561230001369 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 561230001370 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 561230001371 active site 561230001372 KMSKS motif; other site 561230001373 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 561230001374 tRNA binding surface [nucleotide binding]; other site 561230001375 anticodon binding site; other site 561230001376 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 561230001377 DNA polymerase III subunit chi; Validated; Region: PRK05728 561230001378 multifunctional aminopeptidase A; Provisional; Region: PRK00913 561230001379 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 561230001380 interface (dimer of trimers) [polypeptide binding]; other site 561230001381 Substrate-binding/catalytic site; other site 561230001382 Zn-binding sites [ion binding]; other site 561230001383 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 561230001384 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 561230001385 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 561230001386 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 561230001387 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230001388 Coenzyme A binding pocket [chemical binding]; other site 561230001389 Uncharacterized conserved protein [Function unknown]; Region: COG2850 561230001390 Secretory lipase; Region: LIP; pfam03583 561230001391 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 561230001392 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 561230001393 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 561230001394 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 561230001395 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230001396 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230001397 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 561230001398 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 561230001399 Aspartase; Region: Aspartase; cd01357 561230001400 active sites [active] 561230001401 tetramer interface [polypeptide binding]; other site 561230001402 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230001403 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230001404 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 561230001405 dimerization interface [polypeptide binding]; other site 561230001406 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 561230001407 dimer interface [polypeptide binding]; other site 561230001408 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561230001409 Mn binding site [ion binding]; other site 561230001410 K binding site [ion binding]; other site 561230001411 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 561230001412 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 561230001413 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 561230001414 Walker A motif; other site 561230001415 ATP binding site [chemical binding]; other site 561230001416 Walker B motif; other site 561230001417 arginine finger; other site 561230001418 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 561230001419 hypothetical protein; Reviewed; Region: PRK09588 561230001420 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 561230001421 HEAT repeats; Region: HEAT_2; pfam13646 561230001422 RelB antitoxin; Region: RelB; cl01171 561230001423 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 561230001424 HNH endonuclease; Region: HNH_2; pfam13391 561230001425 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 561230001426 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 561230001427 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 561230001428 Sulfate transporter family; Region: Sulfate_transp; pfam00916 561230001429 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 561230001430 active site clefts [active] 561230001431 zinc binding site [ion binding]; other site 561230001432 dimer interface [polypeptide binding]; other site 561230001433 Nitrate and nitrite sensing; Region: NIT; pfam08376 561230001434 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561230001435 HAMP domain; Region: HAMP; pfam00672 561230001436 dimerization interface [polypeptide binding]; other site 561230001437 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230001438 dimer interface [polypeptide binding]; other site 561230001439 putative CheW interface [polypeptide binding]; other site 561230001440 magnesium-transporting ATPase; Provisional; Region: PRK15122 561230001441 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 561230001442 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 561230001443 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 561230001444 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 561230001445 Soluble P-type ATPase [General function prediction only]; Region: COG4087 561230001446 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 561230001447 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230001448 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561230001449 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230001450 dimer interface [polypeptide binding]; other site 561230001451 putative CheW interface [polypeptide binding]; other site 561230001452 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 561230001453 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 561230001454 intersubunit interface [polypeptide binding]; other site 561230001455 active site 561230001456 Zn2+ binding site [ion binding]; other site 561230001457 L-rhamnose isomerase; Provisional; Region: PRK01076 561230001458 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 561230001459 N- and C-terminal domain interface [polypeptide binding]; other site 561230001460 active site 561230001461 putative catalytic site [active] 561230001462 metal binding site [ion binding]; metal-binding site 561230001463 ATP binding site [chemical binding]; other site 561230001464 rhamnulokinase; Provisional; Region: rhaB; PRK10640 561230001465 carbohydrate binding site [chemical binding]; other site 561230001466 transcriptional activator RhaS; Provisional; Region: PRK13503 561230001467 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561230001468 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230001469 transcriptional activator RhaR; Provisional; Region: PRK13501 561230001470 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561230001471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230001472 Predicted transcriptional regulator [Transcription]; Region: COG3905 561230001473 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561230001474 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230001475 Walker A/P-loop; other site 561230001476 ATP binding site [chemical binding]; other site 561230001477 Q-loop/lid; other site 561230001478 ABC transporter signature motif; other site 561230001479 Walker B; other site 561230001480 D-loop; other site 561230001481 H-loop/switch region; other site 561230001482 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230001483 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230001484 Walker A/P-loop; other site 561230001485 ATP binding site [chemical binding]; other site 561230001486 Q-loop/lid; other site 561230001487 ABC transporter signature motif; other site 561230001488 Walker B; other site 561230001489 D-loop; other site 561230001490 H-loop/switch region; other site 561230001491 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230001492 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 561230001493 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 561230001494 dimer interface [polypeptide binding]; other site 561230001495 conserved gate region; other site 561230001496 putative PBP binding loops; other site 561230001497 ABC-ATPase subunit interface; other site 561230001498 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561230001499 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 561230001500 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561230001501 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 561230001502 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 561230001503 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 561230001504 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 561230001505 hypothetical protein; Provisional; Region: PRK05208 561230001506 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 561230001507 Prostaglandin dehydrogenases; Region: PGDH; cd05288 561230001508 NAD(P) binding site [chemical binding]; other site 561230001509 substrate binding site [chemical binding]; other site 561230001510 dimer interface [polypeptide binding]; other site 561230001511 Helix-turn-helix domain; Region: HTH_18; pfam12833 561230001512 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 561230001513 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 561230001514 inhibitor-cofactor binding pocket; inhibition site 561230001515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230001516 catalytic residue [active] 561230001517 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 561230001518 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 561230001519 putative active site [active] 561230001520 metal binding site [ion binding]; metal-binding site 561230001521 Amino acid permease; Region: AA_permease; pfam00324 561230001522 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 561230001523 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 561230001524 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 561230001525 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561230001526 oxidoreductase; Provisional; Region: PRK08013 561230001527 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 561230001528 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 561230001529 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 561230001530 proline aminopeptidase P II; Provisional; Region: PRK10879 561230001531 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 561230001532 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 561230001533 active site 561230001534 hypothetical protein; Reviewed; Region: PRK01736 561230001535 Z-ring-associated protein; Provisional; Region: PRK10972 561230001536 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 561230001537 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 561230001538 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 561230001539 non-specific DNA binding site [nucleotide binding]; other site 561230001540 salt bridge; other site 561230001541 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 561230001542 sequence-specific DNA binding site [nucleotide binding]; other site 561230001543 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 561230001544 active site 561230001545 (T/H)XGH motif; other site 561230001546 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 561230001547 DNA repair protein RadA; Region: sms; TIGR00416 561230001548 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 561230001549 Walker A motif/ATP binding site; other site 561230001550 ATP binding site [chemical binding]; other site 561230001551 Walker B motif; other site 561230001552 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 561230001553 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 561230001554 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 561230001555 motif I; other site 561230001556 motif II; other site 561230001557 hypothetical protein; Provisional; Region: PRK11246 561230001558 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 561230001559 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 561230001560 G1 box; other site 561230001561 putative GEF interaction site [polypeptide binding]; other site 561230001562 GTP/Mg2+ binding site [chemical binding]; other site 561230001563 Switch I region; other site 561230001564 G2 box; other site 561230001565 G3 box; other site 561230001566 Switch II region; other site 561230001567 G4 box; other site 561230001568 G5 box; other site 561230001569 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 561230001570 periplasmic protein; Provisional; Region: PRK10568 561230001571 BON domain; Region: BON; pfam04972 561230001572 BON domain; Region: BON; pfam04972 561230001573 CsbD-like; Region: CsbD; cl17424 561230001574 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 561230001575 active site 561230001576 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 561230001577 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 561230001578 Nucleoside recognition; Region: Gate; pfam07670 561230001579 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 561230001580 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 561230001581 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 561230001582 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 561230001583 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 561230001584 N-terminal plug; other site 561230001585 ligand-binding site [chemical binding]; other site 561230001586 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 561230001587 putative substrate translocation pore; other site 561230001588 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561230001589 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 561230001590 chorismate binding enzyme; Region: Chorismate_bind; cl10555 561230001591 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 561230001592 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 561230001593 acyl-activating enzyme (AAE) consensus motif; other site 561230001594 active site 561230001595 AMP binding site [chemical binding]; other site 561230001596 substrate binding site [chemical binding]; other site 561230001597 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 561230001598 hydrophobic substrate binding pocket; other site 561230001599 Isochorismatase family; Region: Isochorismatase; pfam00857 561230001600 active site 561230001601 conserved cis-peptide bond; other site 561230001602 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 561230001603 Condensation domain; Region: Condensation; pfam00668 561230001604 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 561230001605 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 561230001606 acyl-activating enzyme (AAE) consensus motif; other site 561230001607 AMP binding site [chemical binding]; other site 561230001608 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561230001609 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 561230001610 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 561230001611 putative NAD(P) binding site [chemical binding]; other site 561230001612 active site 561230001613 Condensation domain; Region: Condensation; pfam00668 561230001614 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 561230001615 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 561230001616 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 561230001617 acyl-activating enzyme (AAE) consensus motif; other site 561230001618 AMP binding site [chemical binding]; other site 561230001619 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561230001620 Condensation domain; Region: Condensation; pfam00668 561230001621 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 561230001622 Condensation domain; Region: Condensation; pfam00668 561230001623 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 561230001624 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 561230001625 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 561230001626 acyl-activating enzyme (AAE) consensus motif; other site 561230001627 AMP binding site [chemical binding]; other site 561230001628 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 561230001629 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 561230001630 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001631 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001632 Ca2+ binding site [ion binding]; other site 561230001633 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001634 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001635 Ca2+ binding site [ion binding]; other site 561230001636 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001637 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001638 Ca2+ binding site [ion binding]; other site 561230001639 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001640 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001641 Ca2+ binding site [ion binding]; other site 561230001642 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001643 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001644 Ca2+ binding site [ion binding]; other site 561230001645 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001646 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001647 Ca2+ binding site [ion binding]; other site 561230001648 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001649 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001650 Ca2+ binding site [ion binding]; other site 561230001651 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001652 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001653 Ca2+ binding site [ion binding]; other site 561230001654 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001655 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001656 Ca2+ binding site [ion binding]; other site 561230001657 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001658 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001659 Ca2+ binding site [ion binding]; other site 561230001660 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001661 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001662 Ca2+ binding site [ion binding]; other site 561230001663 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230001664 Cadherin repeat-like domain; Region: CA_like; cl15786 561230001665 Ca2+ binding site [ion binding]; other site 561230001666 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 561230001667 Phage Tail Collar Domain; Region: Collar; pfam07484 561230001668 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 561230001669 active site 561230001670 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230001671 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230001672 Fumarase C-terminus; Region: Fumerase_C; cl00795 561230001673 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230001674 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230001675 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230001676 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230001677 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 561230001678 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 561230001679 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 561230001680 tetramer interface [polypeptide binding]; other site 561230001681 active site 561230001682 Mg2+/Mn2+ binding site [ion binding]; other site 561230001683 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561230001684 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 561230001685 PYR/PP interface [polypeptide binding]; other site 561230001686 dimer interface [polypeptide binding]; other site 561230001687 TPP binding site [chemical binding]; other site 561230001688 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 561230001689 TPP-binding site; other site 561230001690 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 561230001691 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 561230001692 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 561230001693 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 561230001694 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 561230001695 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 561230001696 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230001697 Walker A/P-loop; other site 561230001698 ATP binding site [chemical binding]; other site 561230001699 Q-loop/lid; other site 561230001700 ABC transporter signature motif; other site 561230001701 Walker B; other site 561230001702 D-loop; other site 561230001703 H-loop/switch region; other site 561230001704 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230001705 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 561230001706 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230001707 Walker A/P-loop; other site 561230001708 ATP binding site [chemical binding]; other site 561230001709 Q-loop/lid; other site 561230001710 ABC transporter signature motif; other site 561230001711 Walker B; other site 561230001712 D-loop; other site 561230001713 H-loop/switch region; other site 561230001714 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 561230001715 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 561230001716 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 561230001717 active site 561230001718 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 561230001719 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 561230001720 putative hydrolase; Provisional; Region: PRK02113 561230001721 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 561230001722 Autotransporter beta-domain; Region: Autotransporter; pfam03797 561230001723 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561230001724 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 561230001725 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230001726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230001727 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 561230001728 putative effector binding pocket; other site 561230001729 dimerization interface [polypeptide binding]; other site 561230001730 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230001731 AAA domain; Region: AAA_21; pfam13304 561230001732 Walker A/P-loop; other site 561230001733 ATP binding site [chemical binding]; other site 561230001734 RloB-like protein; Region: RloB; pfam13707 561230001735 plasmid maintenance protein CcdB; Provisional; Region: PRK13708 561230001736 plasmid maintenance protein CcdA; Provisional; Region: PRK13710 561230001737 integrase; Provisional; Region: PRK09692 561230001738 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 561230001739 active site 561230001740 Int/Topo IB signature motif; other site 561230001741 putative transcriptional regulator; Provisional; Region: PRK11640 561230001742 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230001743 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 561230001744 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 561230001745 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 561230001746 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 561230001747 DsbD alpha interface [polypeptide binding]; other site 561230001748 catalytic residues [active] 561230001749 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 561230001750 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 561230001751 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 561230001752 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 561230001753 Aspartase; Region: Aspartase; cd01357 561230001754 active sites [active] 561230001755 tetramer interface [polypeptide binding]; other site 561230001756 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 561230001757 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 561230001758 oligomerisation interface [polypeptide binding]; other site 561230001759 mobile loop; other site 561230001760 roof hairpin; other site 561230001761 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 561230001762 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 561230001763 ring oligomerisation interface [polypeptide binding]; other site 561230001764 ATP/Mg binding site [chemical binding]; other site 561230001765 stacking interactions; other site 561230001766 hinge regions; other site 561230001767 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 561230001768 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 561230001769 UbiA prenyltransferase family; Region: UbiA; pfam01040 561230001770 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 561230001771 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 561230001772 putative acyl-acceptor binding pocket; other site 561230001773 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 561230001774 LexA repressor; Validated; Region: PRK00215 561230001775 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 561230001776 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 561230001777 Catalytic site [active] 561230001778 hypothetical protein; Provisional; Region: PRK10428 561230001779 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 561230001780 metal binding site 2 [ion binding]; metal-binding site 561230001781 putative DNA binding helix; other site 561230001782 metal binding site 1 [ion binding]; metal-binding site 561230001783 dimer interface [polypeptide binding]; other site 561230001784 structural Zn2+ binding site [ion binding]; other site 561230001785 Pirin-related protein [General function prediction only]; Region: COG1741 561230001786 Pirin; Region: Pirin; pfam02678 561230001787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230001788 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 561230001789 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 561230001790 dimerization interface [polypeptide binding]; other site 561230001791 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 561230001792 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 561230001793 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 561230001794 putative dimer interface [polypeptide binding]; other site 561230001795 N-terminal domain interface [polypeptide binding]; other site 561230001796 putative substrate binding pocket (H-site) [chemical binding]; other site 561230001797 Predicted membrane protein [Function unknown]; Region: COG2259 561230001798 YqjK-like protein; Region: YqjK; pfam13997 561230001799 Predicted membrane protein [Function unknown]; Region: COG5393 561230001800 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 561230001801 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 561230001802 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 561230001803 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561230001804 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 561230001805 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 561230001806 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230001807 DNA-binding site [nucleotide binding]; DNA binding site 561230001808 FCD domain; Region: FCD; pfam07729 561230001809 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 561230001810 D-galactonate transporter; Region: 2A0114; TIGR00893 561230001811 putative substrate translocation pore; other site 561230001812 Glucuronate isomerase; Region: UxaC; pfam02614 561230001813 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 561230001814 altronate oxidoreductase; Provisional; Region: PRK03643 561230001815 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561230001816 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561230001817 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 561230001818 galactarate dehydratase; Region: galactar-dH20; TIGR03248 561230001819 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 561230001820 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 561230001821 serine/threonine transporter SstT; Provisional; Region: PRK13628 561230001822 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561230001823 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 561230001824 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561230001825 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561230001826 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 561230001827 Methyltransferase small domain; Region: MTS; pfam05175 561230001828 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561230001829 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 561230001830 active site 561230001831 FMN binding site [chemical binding]; other site 561230001832 2,4-decadienoyl-CoA binding site; other site 561230001833 catalytic residue [active] 561230001834 4Fe-4S cluster binding site [ion binding]; other site 561230001835 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 561230001836 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561230001837 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 561230001838 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 561230001839 dimer interface [polypeptide binding]; other site 561230001840 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230001841 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230001842 metal binding site [ion binding]; metal-binding site 561230001843 active site 561230001844 I-site; other site 561230001845 Domain of unknown function (DUF305); Region: DUF305; pfam03713 561230001846 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 561230001847 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 561230001848 active site turn [active] 561230001849 phosphorylation site [posttranslational modification] 561230001850 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561230001851 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 561230001852 HPr interaction site; other site 561230001853 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561230001854 active site 561230001855 phosphorylation site [posttranslational modification] 561230001856 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 561230001857 beta-galactosidase; Region: BGL; TIGR03356 561230001858 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 561230001859 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 561230001860 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 561230001861 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 561230001862 molybdopterin cofactor binding site; other site 561230001863 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 561230001864 molybdopterin cofactor binding site; other site 561230001865 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 561230001866 Flavodoxin; Region: Flavodoxin_1; pfam00258 561230001867 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 561230001868 FAD binding pocket [chemical binding]; other site 561230001869 FAD binding motif [chemical binding]; other site 561230001870 catalytic residues [active] 561230001871 NAD binding pocket [chemical binding]; other site 561230001872 phosphate binding motif [ion binding]; other site 561230001873 beta-alpha-beta structure motif; other site 561230001874 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 561230001875 active site 561230001876 SUMO-1 interface [polypeptide binding]; other site 561230001877 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 561230001878 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 561230001879 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 561230001880 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 561230001881 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230001882 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 561230001883 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 561230001884 DNA binding residues [nucleotide binding] 561230001885 DNA primase; Validated; Region: dnaG; PRK05667 561230001886 CHC2 zinc finger; Region: zf-CHC2; pfam01807 561230001887 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 561230001888 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 561230001889 active site 561230001890 metal binding site [ion binding]; metal-binding site 561230001891 interdomain interaction site; other site 561230001892 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 561230001893 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 561230001894 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 561230001895 UGMP family protein; Validated; Region: PRK09604 561230001896 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 561230001897 arginine repressor; Provisional; Region: PRK05066 561230001898 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 561230001899 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 561230001900 malate dehydrogenase; Provisional; Region: PRK05086 561230001901 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 561230001902 NAD binding site [chemical binding]; other site 561230001903 dimerization interface [polypeptide binding]; other site 561230001904 Substrate binding site [chemical binding]; other site 561230001905 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561230001906 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 561230001907 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 561230001908 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 561230001909 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 561230001910 substrate binding pocket [chemical binding]; other site 561230001911 chain length determination region; other site 561230001912 substrate-Mg2+ binding site; other site 561230001913 catalytic residues [active] 561230001914 aspartate-rich region 1; other site 561230001915 active site lid residues [active] 561230001916 aspartate-rich region 2; other site 561230001917 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 561230001918 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 561230001919 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 561230001920 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561230001921 EamA-like transporter family; Region: EamA; pfam00892 561230001922 EamA-like transporter family; Region: EamA; pfam00892 561230001923 GTPase CgtA; Reviewed; Region: obgE; PRK12298 561230001924 GTP1/OBG; Region: GTP1_OBG; pfam01018 561230001925 Obg GTPase; Region: Obg; cd01898 561230001926 G1 box; other site 561230001927 GTP/Mg2+ binding site [chemical binding]; other site 561230001928 Switch I region; other site 561230001929 G2 box; other site 561230001930 G3 box; other site 561230001931 Switch II region; other site 561230001932 G4 box; other site 561230001933 G5 box; other site 561230001934 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 561230001935 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 561230001936 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 561230001937 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 561230001938 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 561230001939 RNA-binding protein YhbY; Provisional; Region: PRK10343 561230001940 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 561230001941 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 561230001942 S-adenosylmethionine binding site [chemical binding]; other site 561230001943 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 561230001944 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 561230001945 Walker A motif; other site 561230001946 ATP binding site [chemical binding]; other site 561230001947 Walker B motif; other site 561230001948 arginine finger; other site 561230001949 Peptidase family M41; Region: Peptidase_M41; pfam01434 561230001950 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 561230001951 dihydropteroate synthase; Region: DHPS; TIGR01496 561230001952 substrate binding pocket [chemical binding]; other site 561230001953 dimer interface [polypeptide binding]; other site 561230001954 inhibitor binding site; inhibition site 561230001955 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 561230001956 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 561230001957 active site 561230001958 substrate binding site [chemical binding]; other site 561230001959 metal binding site [ion binding]; metal-binding site 561230001960 Preprotein translocase SecG subunit; Region: SecG; pfam03840 561230001961 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 561230001962 Prostaglandin dehydrogenases; Region: PGDH; cd05288 561230001963 NAD(P) binding site [chemical binding]; other site 561230001964 substrate binding site [chemical binding]; other site 561230001965 dimer interface [polypeptide binding]; other site 561230001966 Condensation domain; Region: Condensation; pfam00668 561230001967 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 561230001968 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 561230001969 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 561230001970 acyl-activating enzyme (AAE) consensus motif; other site 561230001971 AMP binding site [chemical binding]; other site 561230001972 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561230001973 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 561230001974 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 561230001975 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 561230001976 active site 561230001977 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 561230001978 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 561230001979 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 561230001980 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 561230001981 putative NADP binding site [chemical binding]; other site 561230001982 active site 561230001983 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561230001984 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561230001985 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 561230001986 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 561230001987 acyl-activating enzyme (AAE) consensus motif; other site 561230001988 AMP binding site [chemical binding]; other site 561230001989 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 561230001990 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 561230001991 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 561230001992 acyl-activating enzyme (AAE) consensus motif; other site 561230001993 AMP binding site [chemical binding]; other site 561230001994 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561230001995 Condensation domain; Region: Condensation; pfam00668 561230001996 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 561230001997 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 561230001998 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 561230001999 catalytic residues [active] 561230002000 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 561230002001 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 561230002002 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 561230002003 DNA binding residues [nucleotide binding] 561230002004 dimerization interface [polypeptide binding]; other site 561230002005 ribosome maturation protein RimP; Reviewed; Region: PRK00092 561230002006 Sm and related proteins; Region: Sm_like; cl00259 561230002007 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 561230002008 putative oligomer interface [polypeptide binding]; other site 561230002009 putative RNA binding site [nucleotide binding]; other site 561230002010 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 561230002011 NusA N-terminal domain; Region: NusA_N; pfam08529 561230002012 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 561230002013 RNA binding site [nucleotide binding]; other site 561230002014 homodimer interface [polypeptide binding]; other site 561230002015 NusA-like KH domain; Region: KH_5; pfam13184 561230002016 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 561230002017 G-X-X-G motif; other site 561230002018 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 561230002019 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 561230002020 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 561230002021 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 561230002022 translation initiation factor IF-2; Region: IF-2; TIGR00487 561230002023 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 561230002024 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 561230002025 G1 box; other site 561230002026 putative GEF interaction site [polypeptide binding]; other site 561230002027 GTP/Mg2+ binding site [chemical binding]; other site 561230002028 Switch I region; other site 561230002029 G2 box; other site 561230002030 G3 box; other site 561230002031 Switch II region; other site 561230002032 G4 box; other site 561230002033 G5 box; other site 561230002034 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 561230002035 Translation-initiation factor 2; Region: IF-2; pfam11987 561230002036 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 561230002037 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 561230002038 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 561230002039 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 561230002040 RNA binding site [nucleotide binding]; other site 561230002041 active site 561230002042 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 561230002043 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 561230002044 16S/18S rRNA binding site [nucleotide binding]; other site 561230002045 S13e-L30e interaction site [polypeptide binding]; other site 561230002046 25S rRNA binding site [nucleotide binding]; other site 561230002047 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 561230002048 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 561230002049 RNase E interface [polypeptide binding]; other site 561230002050 trimer interface [polypeptide binding]; other site 561230002051 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 561230002052 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 561230002053 RNase E interface [polypeptide binding]; other site 561230002054 trimer interface [polypeptide binding]; other site 561230002055 active site 561230002056 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 561230002057 putative nucleic acid binding region [nucleotide binding]; other site 561230002058 G-X-X-G motif; other site 561230002059 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 561230002060 RNA binding site [nucleotide binding]; other site 561230002061 domain interface; other site 561230002062 lipoprotein NlpI; Provisional; Region: PRK11189 561230002063 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 561230002064 binding surface 561230002065 TPR motif; other site 561230002066 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 561230002067 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 561230002068 ATP binding site [chemical binding]; other site 561230002069 Mg++ binding site [ion binding]; other site 561230002070 motif III; other site 561230002071 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 561230002072 nucleotide binding region [chemical binding]; other site 561230002073 ATP-binding site [chemical binding]; other site 561230002074 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 561230002075 putative RNA binding site [nucleotide binding]; other site 561230002076 hypothetical protein; Provisional; Region: PRK10508 561230002077 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 561230002078 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 561230002079 putative protease; Provisional; Region: PRK15447 561230002080 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 561230002081 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 561230002082 Peptidase family U32; Region: Peptidase_U32; pfam01136 561230002083 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 561230002084 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230002085 Coenzyme A binding pocket [chemical binding]; other site 561230002086 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 561230002087 GIY-YIG motif/motif A; other site 561230002088 putative active site [active] 561230002089 putative metal binding site [ion binding]; other site 561230002090 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 561230002091 amidohydrolase; Region: amidohydrolases; TIGR01891 561230002092 putative metal binding site [ion binding]; other site 561230002093 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 561230002094 intersubunit interface [polypeptide binding]; other site 561230002095 active site 561230002096 catalytic residue [active] 561230002097 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 561230002098 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 561230002099 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 561230002100 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 561230002101 phosphopentomutase; Provisional; Region: PRK05362 561230002102 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 561230002103 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 561230002104 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 561230002105 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 561230002106 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 561230002107 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 561230002108 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 561230002109 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 561230002110 N-terminal plug; other site 561230002111 ligand-binding site [chemical binding]; other site 561230002112 fec operon regulator FecR; Reviewed; Region: PRK09774 561230002113 FecR protein; Region: FecR; pfam04773 561230002114 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 561230002115 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230002116 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 561230002117 DNA binding residues [nucleotide binding] 561230002118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230002119 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 561230002120 dimerization interface [polypeptide binding]; other site 561230002121 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 561230002122 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 561230002123 hexamer interface [polypeptide binding]; other site 561230002124 active site 2 [active] 561230002125 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 561230002126 sugar binding site [chemical binding]; other site 561230002127 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 561230002128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230002129 Coenzyme A binding pocket [chemical binding]; other site 561230002130 DNA polymerase III subunit psi; Validated; Region: PRK06856 561230002131 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 561230002132 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 561230002133 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 561230002134 S-adenosylmethionine binding site [chemical binding]; other site 561230002135 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 561230002136 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561230002137 active site 561230002138 catalytic tetrad [active] 561230002139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230002140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230002141 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 561230002142 putative effector binding pocket; other site 561230002143 putative dimerization interface [polypeptide binding]; other site 561230002144 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 561230002145 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230002146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230002147 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 561230002148 putative dimerization interface [polypeptide binding]; other site 561230002149 putative substrate binding pocket [chemical binding]; other site 561230002150 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 561230002151 acetolactate synthase; Reviewed; Region: PRK08617 561230002152 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561230002153 PYR/PP interface [polypeptide binding]; other site 561230002154 dimer interface [polypeptide binding]; other site 561230002155 TPP binding site [chemical binding]; other site 561230002156 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561230002157 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 561230002158 TPP-binding site [chemical binding]; other site 561230002159 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 561230002160 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 561230002161 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 561230002162 dimer interface [polypeptide binding]; other site 561230002163 active site 561230002164 metal binding site [ion binding]; metal-binding site 561230002165 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 561230002166 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 561230002167 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 561230002168 lipoyl attachment site [posttranslational modification]; other site 561230002169 glycine dehydrogenase; Provisional; Region: PRK05367 561230002170 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 561230002171 tetramer interface [polypeptide binding]; other site 561230002172 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230002173 catalytic residue [active] 561230002174 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 561230002175 tetramer interface [polypeptide binding]; other site 561230002176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230002177 catalytic residue [active] 561230002178 Toxin YafO, type II toxin-antitoxin system; Region: YafO_toxin; pfam13957 561230002179 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 561230002180 dimer interface [polypeptide binding]; other site 561230002181 conserved gate region; other site 561230002182 putative PBP binding loops; other site 561230002183 ABC-ATPase subunit interface; other site 561230002184 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561230002185 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 561230002186 dimer interface [polypeptide binding]; other site 561230002187 conserved gate region; other site 561230002188 putative PBP binding loops; other site 561230002189 ABC-ATPase subunit interface; other site 561230002190 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 561230002191 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561230002192 active site 561230002193 metal binding site [ion binding]; metal-binding site 561230002194 hexamer interface [polypeptide binding]; other site 561230002195 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 561230002196 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561230002197 Walker A/P-loop; other site 561230002198 ATP binding site [chemical binding]; other site 561230002199 Q-loop/lid; other site 561230002200 ABC transporter signature motif; other site 561230002201 Walker B; other site 561230002202 D-loop; other site 561230002203 H-loop/switch region; other site 561230002204 TOBE domain; Region: TOBE_2; pfam08402 561230002205 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561230002206 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 561230002207 galactoside permease; Reviewed; Region: lacY; PRK09528 561230002208 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 561230002209 putative substrate translocation pore; other site 561230002210 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 561230002211 Melibiase; Region: Melibiase; pfam02065 561230002212 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230002213 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230002214 DNA binding site [nucleotide binding] 561230002215 domain linker motif; other site 561230002216 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 561230002217 ligand binding site [chemical binding]; other site 561230002218 HD domain; Region: HD_3; pfam13023 561230002219 hemolysin; Provisional; Region: PRK15087 561230002220 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 561230002221 putative global regulator; Reviewed; Region: PRK09559 561230002222 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 561230002223 hypothetical protein; Provisional; Region: PRK10878 561230002224 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 561230002225 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 561230002226 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 561230002227 S-adenosylmethionine binding site [chemical binding]; other site 561230002228 flavodoxin FldB; Provisional; Region: PRK12359 561230002229 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 561230002230 active site 561230002231 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 561230002232 metabolite-proton symporter; Region: 2A0106; TIGR00883 561230002233 putative substrate translocation pore; other site 561230002234 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 561230002235 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 561230002236 active site 561230002237 Int/Topo IB signature motif; other site 561230002238 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 561230002239 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 561230002240 dimerization domain [polypeptide binding]; other site 561230002241 dimer interface [polypeptide binding]; other site 561230002242 catalytic residues [active] 561230002243 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 561230002244 DHH family; Region: DHH; pfam01368 561230002245 DHHA1 domain; Region: DHHA1; pfam02272 561230002246 peptide chain release factor 2; Validated; Region: prfB; PRK00578 561230002247 This domain is found in peptide chain release factors; Region: PCRF; smart00937 561230002248 RF-1 domain; Region: RF-1; pfam00472 561230002249 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 561230002250 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 561230002251 dimer interface [polypeptide binding]; other site 561230002252 putative anticodon binding site; other site 561230002253 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 561230002254 motif 1; other site 561230002255 active site 561230002256 motif 2; other site 561230002257 motif 3; other site 561230002258 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561230002259 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230002260 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230002261 LysE type translocator; Region: LysE; cl00565 561230002262 Cupin domain; Region: Cupin_2; pfam07883 561230002263 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 561230002264 SnoaL-like domain; Region: SnoaL_3; pfam13474 561230002265 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 561230002266 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 561230002267 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 561230002268 putative acyl-acceptor binding pocket; other site 561230002269 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 561230002270 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 561230002271 Na binding site [ion binding]; other site 561230002272 putative substrate binding site [chemical binding]; other site 561230002273 Transcriptional regulators [Transcription]; Region: GntR; COG1802 561230002274 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230002275 DNA-binding site [nucleotide binding]; DNA binding site 561230002276 FCD domain; Region: FCD; pfam07729 561230002277 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 561230002278 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 561230002279 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 561230002280 active site 561230002281 catalytic site [active] 561230002282 tetramer interface [polypeptide binding]; other site 561230002283 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 561230002284 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 561230002285 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 561230002286 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 561230002287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230002288 active site 561230002289 phosphorylation site [posttranslational modification] 561230002290 intermolecular recognition site; other site 561230002291 dimerization interface [polypeptide binding]; other site 561230002292 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 561230002293 DNA binding site [nucleotide binding] 561230002294 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 561230002295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561230002296 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 561230002297 dimer interface [polypeptide binding]; other site 561230002298 phosphorylation site [posttranslational modification] 561230002299 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 561230002300 ATP binding site [chemical binding]; other site 561230002301 Mg2+ binding site [ion binding]; other site 561230002302 G-X-G motif; other site 561230002303 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 561230002304 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 561230002305 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 561230002306 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 561230002307 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561230002308 Type IV pili component [Cell motility and secretion]; Region: COG5461 561230002309 pilus (Caulobacter type) biogenesis lipoprotein CpaD; Region: pilus_cpaD; TIGR02522 561230002310 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 561230002311 intermolecular recognition site; other site 561230002312 active site 561230002313 dimerization interface [polypeptide binding]; other site 561230002314 AAA domain; Region: AAA_31; pfam13614 561230002315 Type II/IV secretion system protein; Region: T2SE; pfam00437 561230002316 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 561230002317 ATP binding site [chemical binding]; other site 561230002318 Walker A motif; other site 561230002319 hexamer interface [polypeptide binding]; other site 561230002320 Walker B motif; other site 561230002321 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 561230002322 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561230002323 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 561230002324 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561230002325 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 561230002326 binding surface 561230002327 TPR motif; other site 561230002328 Tetratricopeptide repeat; Region: TPR_12; pfam13424 561230002329 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 561230002330 binding surface 561230002331 TPR motif; other site 561230002332 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 561230002333 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 561230002334 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561230002335 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 561230002336 structural tetrad; other site 561230002337 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561230002338 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230002339 Putative Ig domain; Region: He_PIG; pfam05345 561230002340 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561230002341 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561230002342 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561230002343 Putative Ig domain; Region: He_PIG; pfam05345 561230002344 Outer membrane efflux protein; Region: OEP; pfam02321 561230002345 Outer membrane efflux protein; Region: OEP; pfam02321 561230002346 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230002347 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230002348 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 561230002349 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230002350 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 561230002351 active site 561230002352 putative substrate binding region [chemical binding]; other site 561230002353 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230002354 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230002355 N-terminal catalytic domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_N; cd10320 561230002356 active site 561230002357 catalytic site [active] 561230002358 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 561230002359 C-terminal domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_C; cd10317 561230002360 Ca binding site [ion binding]; other site 561230002361 substrate binding site [chemical binding]; other site 561230002362 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 561230002363 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 561230002364 Na binding site [ion binding]; other site 561230002365 Predicted membrane protein [Function unknown]; Region: COG3162 561230002366 acetyl-CoA synthetase; Provisional; Region: PRK00174 561230002367 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 561230002368 active site 561230002369 CoA binding site [chemical binding]; other site 561230002370 acyl-activating enzyme (AAE) consensus motif; other site 561230002371 AMP binding site [chemical binding]; other site 561230002372 acetate binding site [chemical binding]; other site 561230002373 Secretin and TonB N terminus short domain; Region: STN; smart00965 561230002374 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 561230002375 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 561230002376 N-terminal plug; other site 561230002377 ligand-binding site [chemical binding]; other site 561230002378 RNA polymerase sigma factor; Provisional; Region: PRK12528 561230002379 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230002380 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 561230002381 DNA binding residues [nucleotide binding] 561230002382 fec operon regulator FecR; Reviewed; Region: PRK09774 561230002383 FecR protein; Region: FecR; pfam04773 561230002384 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 561230002385 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 561230002386 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 561230002387 D-mannonate oxidoreductase; Provisional; Region: PRK15037 561230002388 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561230002389 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561230002390 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 561230002391 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 561230002392 homodimer interface [polypeptide binding]; other site 561230002393 substrate-cofactor binding pocket; other site 561230002394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230002395 catalytic residue [active] 561230002396 L,D-transpeptidase; Provisional; Region: PRK10260 561230002397 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 561230002398 Predicted amidohydrolase [General function prediction only]; Region: COG0388 561230002399 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 561230002400 putative active site [active] 561230002401 catalytic triad [active] 561230002402 putative dimer interface [polypeptide binding]; other site 561230002403 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 561230002404 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 561230002405 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 561230002406 dimer interface [polypeptide binding]; other site 561230002407 PYR/PP interface [polypeptide binding]; other site 561230002408 TPP binding site [chemical binding]; other site 561230002409 substrate binding site [chemical binding]; other site 561230002410 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 561230002411 Domain of unknown function; Region: EKR; smart00890 561230002412 4Fe-4S binding domain; Region: Fer4_6; pfam12837 561230002413 4Fe-4S binding domain; Region: Fer4; pfam00037 561230002414 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 561230002415 TPP-binding site [chemical binding]; other site 561230002416 dimer interface [polypeptide binding]; other site 561230002417 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 561230002418 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 561230002419 active site 561230002420 putative symporter YagG; Provisional; Region: PRK09669 561230002421 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 561230002422 putative substrate translocation pore; other site 561230002423 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 561230002424 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230002425 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 561230002426 putative substrate binding pocket [chemical binding]; other site 561230002427 dimerization interface [polypeptide binding]; other site 561230002428 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230002429 Coenzyme A binding pocket [chemical binding]; other site 561230002430 LysE type translocator; Region: LysE; cl00565 561230002431 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 561230002432 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 561230002433 substrate binding pocket [chemical binding]; other site 561230002434 membrane-bound complex binding site; other site 561230002435 hinge residues; other site 561230002436 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 561230002437 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 561230002438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 561230002439 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 561230002440 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 561230002441 active site 561230002442 metal binding site [ion binding]; metal-binding site 561230002443 interdomain interaction site; other site 561230002444 D5 N terminal like; Region: D5_N; smart00885 561230002445 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 561230002446 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 561230002447 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 561230002448 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 561230002449 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230002450 Walker A/P-loop; other site 561230002451 ATP binding site [chemical binding]; other site 561230002452 integrase; Provisional; Region: PRK09692 561230002453 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 561230002454 active site 561230002455 Int/Topo IB signature motif; other site 561230002456 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 561230002457 SmpB-tmRNA interface; other site 561230002458 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 561230002459 putative coenzyme Q binding site [chemical binding]; other site 561230002460 hypothetical protein; Validated; Region: PRK01777 561230002461 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 561230002462 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 561230002463 recombination and repair protein; Provisional; Region: PRK10869 561230002464 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 561230002465 Walker A/P-loop; other site 561230002466 ATP binding site [chemical binding]; other site 561230002467 Q-loop/lid; other site 561230002468 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 561230002469 ABC transporter signature motif; other site 561230002470 Walker B; other site 561230002471 D-loop; other site 561230002472 H-loop/switch region; other site 561230002473 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 561230002474 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 561230002475 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 561230002476 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 561230002477 dimer interface [polypeptide binding]; other site 561230002478 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 561230002479 manganese transport protein MntH; Reviewed; Region: PRK00701 561230002480 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 561230002481 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 561230002482 active site 1 [active] 561230002483 dimer interface [polypeptide binding]; other site 561230002484 hexamer interface [polypeptide binding]; other site 561230002485 active site 2 [active] 561230002486 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 561230002487 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 561230002488 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 561230002489 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 561230002490 dimer interface [polypeptide binding]; other site 561230002491 active site 561230002492 metal binding site [ion binding]; metal-binding site 561230002493 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 561230002494 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 561230002495 dimer interface [polypeptide binding]; other site 561230002496 ADP-ribose binding site [chemical binding]; other site 561230002497 active site 561230002498 nudix motif; other site 561230002499 metal binding site [ion binding]; metal-binding site 561230002500 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561230002501 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561230002502 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 561230002503 dimer interface [polypeptide binding]; other site 561230002504 conserved gate region; other site 561230002505 putative PBP binding loops; other site 561230002506 ABC-ATPase subunit interface; other site 561230002507 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561230002508 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 561230002509 dimer interface [polypeptide binding]; other site 561230002510 conserved gate region; other site 561230002511 putative PBP binding loops; other site 561230002512 ABC-ATPase subunit interface; other site 561230002513 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561230002514 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561230002515 Walker A/P-loop; other site 561230002516 ATP binding site [chemical binding]; other site 561230002517 Q-loop/lid; other site 561230002518 ABC transporter signature motif; other site 561230002519 Walker B; other site 561230002520 D-loop; other site 561230002521 H-loop/switch region; other site 561230002522 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 561230002523 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 561230002524 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 561230002525 putative sugar binding sites [chemical binding]; other site 561230002526 Q-X-W motif; other site 561230002527 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 561230002528 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230002529 DNA binding site [nucleotide binding] 561230002530 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 561230002531 putative dimerization interface [polypeptide binding]; other site 561230002532 putative ligand binding site [chemical binding]; other site 561230002533 transcriptional antiterminator BglG; Provisional; Region: PRK09772 561230002534 CAT RNA binding domain; Region: CAT_RBD; smart01061 561230002535 PRD domain; Region: PRD; pfam00874 561230002536 PRD domain; Region: PRD; pfam00874 561230002537 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 561230002538 beta-galactosidase; Region: BGL; TIGR03356 561230002539 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 561230002540 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 561230002541 active site turn [active] 561230002542 phosphorylation site [posttranslational modification] 561230002543 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561230002544 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 561230002545 HPr interaction site; other site 561230002546 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561230002547 active site 561230002548 phosphorylation site [posttranslational modification] 561230002549 transketolase; Reviewed; Region: PRK12753 561230002550 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 561230002551 TPP-binding site [chemical binding]; other site 561230002552 dimer interface [polypeptide binding]; other site 561230002553 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 561230002554 PYR/PP interface [polypeptide binding]; other site 561230002555 dimer interface [polypeptide binding]; other site 561230002556 TPP binding site [chemical binding]; other site 561230002557 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 561230002558 transaldolase-like protein; Provisional; Region: PTZ00411 561230002559 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 561230002560 active site 561230002561 dimer interface [polypeptide binding]; other site 561230002562 catalytic residue [active] 561230002563 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 561230002564 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 561230002565 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 561230002566 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 561230002567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 561230002568 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 561230002569 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 561230002570 triosephosphate isomerase; Provisional; Region: PRK14565 561230002571 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 561230002572 substrate binding site [chemical binding]; other site 561230002573 dimer interface [polypeptide binding]; other site 561230002574 catalytic triad [active] 561230002575 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 561230002576 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 561230002577 DNA binding residues [nucleotide binding] 561230002578 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 561230002579 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 561230002580 Malic enzyme, N-terminal domain; Region: malic; pfam00390 561230002581 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 561230002582 putative NAD(P) binding site [chemical binding]; other site 561230002583 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 561230002584 tryptophan permease; Provisional; Region: PRK10483 561230002585 aromatic amino acid transport protein; Region: araaP; TIGR00837 561230002586 hypothetical protein; Validated; Region: PRK00124 561230002587 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 561230002588 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 561230002589 putative acetyltransferase; Provisional; Region: PRK03624 561230002590 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230002591 Coenzyme A binding pocket [chemical binding]; other site 561230002592 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 561230002593 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 561230002594 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 561230002595 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 561230002596 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561230002597 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 561230002598 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 561230002599 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 561230002600 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 561230002601 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 561230002602 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 561230002603 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 561230002604 thiosulfate transporter subunit; Provisional; Region: PRK10852 561230002605 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561230002606 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561230002607 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 561230002608 dimer interface [polypeptide binding]; other site 561230002609 conserved gate region; other site 561230002610 putative PBP binding loops; other site 561230002611 ABC-ATPase subunit interface; other site 561230002612 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561230002613 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 561230002614 dimer interface [polypeptide binding]; other site 561230002615 conserved gate region; other site 561230002616 putative PBP binding loops; other site 561230002617 ABC-ATPase subunit interface; other site 561230002618 cysteine synthase B; Region: cysM; TIGR01138 561230002619 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 561230002620 dimer interface [polypeptide binding]; other site 561230002621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230002622 catalytic residue [active] 561230002623 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 561230002624 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561230002625 Walker A/P-loop; other site 561230002626 ATP binding site [chemical binding]; other site 561230002627 Q-loop/lid; other site 561230002628 ABC transporter signature motif; other site 561230002629 Walker B; other site 561230002630 D-loop; other site 561230002631 H-loop/switch region; other site 561230002632 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561230002633 FtsX-like permease family; Region: FtsX; pfam02687 561230002634 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 561230002635 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230002636 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230002637 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 561230002638 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230002639 active site 561230002640 phosphorylation site [posttranslational modification] 561230002641 intermolecular recognition site; other site 561230002642 dimerization interface [polypeptide binding]; other site 561230002643 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 561230002644 DNA binding site [nucleotide binding] 561230002645 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561230002646 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 561230002647 dimerization interface [polypeptide binding]; other site 561230002648 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 561230002649 dimer interface [polypeptide binding]; other site 561230002650 phosphorylation site [posttranslational modification] 561230002651 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 561230002652 ATP binding site [chemical binding]; other site 561230002653 Mg2+ binding site [ion binding]; other site 561230002654 G-X-G motif; other site 561230002655 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 561230002656 HPr interaction site; other site 561230002657 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561230002658 active site 561230002659 phosphorylation site [posttranslational modification] 561230002660 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 561230002661 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 561230002662 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 561230002663 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 561230002664 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 561230002665 dimerization domain swap beta strand [polypeptide binding]; other site 561230002666 regulatory protein interface [polypeptide binding]; other site 561230002667 active site 561230002668 regulatory phosphorylation site [posttranslational modification]; other site 561230002669 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 561230002670 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 561230002671 dimer interface [polypeptide binding]; other site 561230002672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230002673 catalytic residue [active] 561230002674 putative sulfate transport protein CysZ; Validated; Region: PRK04949 561230002675 cell division protein ZipA; Provisional; Region: PRK03427 561230002676 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 561230002677 FtsZ protein binding site [polypeptide binding]; other site 561230002678 putative transporter; Provisional; Region: PRK11021 561230002679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 561230002680 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 561230002681 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 561230002682 tellurite resistance protein TehB; Provisional; Region: PRK12335 561230002683 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 561230002684 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 561230002685 S-adenosylmethionine binding site [chemical binding]; other site 561230002686 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 561230002687 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561230002688 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230002689 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 561230002690 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 561230002691 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 561230002692 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 561230002693 iron binding site [ion binding]; other site 561230002694 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 561230002695 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 561230002696 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 561230002697 Walker A motif; other site 561230002698 ATP binding site [chemical binding]; other site 561230002699 Walker B motif; other site 561230002700 arginine finger; other site 561230002701 fumarate hydratase; Provisional; Region: PRK15389 561230002702 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 561230002703 Fumarase C-terminus; Region: Fumerase_C; pfam05683 561230002704 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 561230002705 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230002706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230002707 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 561230002708 dimerization interface [polypeptide binding]; other site 561230002709 Predicted membrane protein [Function unknown]; Region: COG4125 561230002710 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 561230002711 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 561230002712 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 561230002713 endonuclease III; Region: ENDO3c; smart00478 561230002714 minor groove reading motif; other site 561230002715 helix-hairpin-helix signature motif; other site 561230002716 substrate binding pocket [chemical binding]; other site 561230002717 active site 561230002718 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 561230002719 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 561230002720 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 561230002721 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230002722 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 561230002723 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 561230002724 DNA binding site [nucleotide binding] 561230002725 active site 561230002726 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 561230002727 Predicted oxidoreductase [General function prediction only]; Region: COG3573 561230002728 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 561230002729 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 561230002730 FMN-binding domain; Region: FMN_bind; pfam04205 561230002731 putative transporter; Provisional; Region: PRK10504 561230002732 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 561230002733 putative substrate translocation pore; other site 561230002734 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 561230002735 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 561230002736 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 561230002737 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 561230002738 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 561230002739 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 561230002740 substrate binding pocket [chemical binding]; other site 561230002741 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561230002742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230002743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230002744 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 561230002745 dimerization interface [polypeptide binding]; other site 561230002746 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 561230002747 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 561230002748 putative active site pocket [active] 561230002749 putative metal binding site [ion binding]; other site 561230002750 putative oxidoreductase; Provisional; Region: PRK10083 561230002751 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 561230002752 putative NAD(P) binding site [chemical binding]; other site 561230002753 catalytic Zn binding site [ion binding]; other site 561230002754 structural Zn binding site [ion binding]; other site 561230002755 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 561230002756 metabolite-proton symporter; Region: 2A0106; TIGR00883 561230002757 putative substrate translocation pore; other site 561230002758 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 561230002759 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561230002760 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561230002761 Transcriptional regulators [Transcription]; Region: GntR; COG1802 561230002762 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230002763 DNA-binding site [nucleotide binding]; DNA binding site 561230002764 FCD domain; Region: FCD; pfam07729 561230002765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 561230002766 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 561230002767 PLD-like domain; Region: PLDc_2; pfam13091 561230002768 putative active site [active] 561230002769 catalytic site [active] 561230002770 Putative catalytic domain, repeat 2, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Region: PLDc_vPLD3_4_5_like_2; cd09107 561230002771 PLD-like domain; Region: PLDc_2; pfam13091 561230002772 putative active site [active] 561230002773 putative catalytic site [active] 561230002774 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 561230002775 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561230002776 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 561230002777 N-terminal plug; other site 561230002778 ligand-binding site [chemical binding]; other site 561230002779 Gram-negative bacterial tonB protein; Region: TonB; cl10048 561230002780 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 561230002781 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 561230002782 drug efflux system protein MdtG; Provisional; Region: PRK09874 561230002783 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 561230002784 putative substrate translocation pore; other site 561230002785 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 561230002786 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 561230002787 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 561230002788 Na binding site [ion binding]; other site 561230002789 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 561230002790 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 561230002791 DNA binding residues [nucleotide binding] 561230002792 dimerization interface [polypeptide binding]; other site 561230002793 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230002794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230002795 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 561230002796 Predicted permeases [General function prediction only]; Region: COG0679 561230002797 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 561230002798 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 561230002799 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 561230002800 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 561230002801 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 561230002802 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 561230002803 PapC N-terminal domain; Region: PapC_N; pfam13954 561230002804 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 561230002805 PapC C-terminal domain; Region: PapC_C; pfam13953 561230002806 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 561230002807 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; cl17355 561230002808 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561230002809 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230002810 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 561230002811 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 561230002812 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 561230002813 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561230002814 hypothetical protein; Provisional; Region: PRK10621 561230002815 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230002816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230002817 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 561230002818 dimerization interface [polypeptide binding]; other site 561230002819 substrate binding pocket [chemical binding]; other site 561230002820 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561230002821 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561230002822 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561230002823 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561230002824 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230002825 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 561230002826 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561230002827 O-methyltransferase; Region: Methyltransf_2; pfam00891 561230002828 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 561230002829 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 561230002830 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561230002831 Transcriptional regulators [Transcription]; Region: MarR; COG1846 561230002832 MarR family; Region: MarR; pfam01047 561230002833 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 561230002834 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 561230002835 putative substrate translocation pore; other site 561230002836 Cupin; Region: Cupin_6; pfam12852 561230002837 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230002838 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230002839 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230002840 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 561230002841 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 561230002842 active site 561230002843 DNA binding site [nucleotide binding] 561230002844 Int/Topo IB signature motif; other site 561230002845 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 561230002846 DNA methylase; Region: N6_N4_Mtase; pfam01555 561230002847 DNA methylase; Region: N6_N4_Mtase; cl17433 561230002848 Restriction endonuclease [Defense mechanisms]; Region: COG3587 561230002849 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 561230002850 ATP binding site [chemical binding]; other site 561230002851 putative Mg++ binding site [ion binding]; other site 561230002852 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 561230002853 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 561230002854 ATP binding site [chemical binding]; other site 561230002855 putative Mg++ binding site [ion binding]; other site 561230002856 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 561230002857 DNA methylase; Region: N6_N4_Mtase; pfam01555 561230002858 DNA methylase; Region: N6_N4_Mtase; cl17433 561230002859 plasmid maintenance protein CcdB; Provisional; Region: PRK13708 561230002860 plasmid maintenance protein CcdA; Provisional; Region: PRK13710 561230002861 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 561230002862 integrase; Provisional; Region: PRK09692 561230002863 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 561230002864 active site 561230002865 Int/Topo IB signature motif; other site 561230002866 Protein of unknown function DUF45; Region: DUF45; pfam01863 561230002867 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 561230002868 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 561230002869 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 561230002870 ATP binding site [chemical binding]; other site 561230002871 putative Mg++ binding site [ion binding]; other site 561230002872 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 561230002873 ADP-ribose binding site [chemical binding]; other site 561230002874 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 561230002875 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 561230002876 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 561230002877 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 561230002878 HsdM N-terminal domain; Region: HsdM_N; pfam12161 561230002879 Methyltransferase domain; Region: Methyltransf_26; pfam13659 561230002880 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561230002881 integrase; Provisional; Region: PRK09692 561230002882 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 561230002883 active site 561230002884 Int/Topo IB signature motif; other site 561230002885 ornithine decarboxylase; Provisional; Region: PRK13578 561230002886 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 561230002887 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 561230002888 homodimer interface [polypeptide binding]; other site 561230002889 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230002890 catalytic residue [active] 561230002891 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 561230002892 L-asparagine permease; Provisional; Region: PRK15049 561230002893 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 561230002894 classical (c) SDRs; Region: SDR_c; cd05233 561230002895 NAD(P) binding site [chemical binding]; other site 561230002896 active site 561230002897 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561230002898 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230002899 hypothetical protein; Provisional; Region: PRK02399 561230002900 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 561230002901 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 561230002902 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 561230002903 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561230002904 Helix-turn-helix domain; Region: HTH_18; pfam12833 561230002905 murein transglycosylase C; Provisional; Region: mltC; PRK11671 561230002906 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 561230002907 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 561230002908 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561230002909 catalytic residue [active] 561230002910 oxidative damage protection protein; Provisional; Region: PRK05408 561230002911 adenine DNA glycosylase; Provisional; Region: PRK10880 561230002912 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 561230002913 minor groove reading motif; other site 561230002914 helix-hairpin-helix signature motif; other site 561230002915 substrate binding pocket [chemical binding]; other site 561230002916 active site 561230002917 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 561230002918 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 561230002919 DNA binding and oxoG recognition site [nucleotide binding] 561230002920 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 561230002921 hypothetical protein; Provisional; Region: PRK11702 561230002922 hypothetical protein; Provisional; Region: PRK10626 561230002923 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 561230002924 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 561230002925 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230002926 DNA-binding site [nucleotide binding]; DNA binding site 561230002927 UTRA domain; Region: UTRA; pfam07702 561230002928 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 561230002929 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 561230002930 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 561230002931 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 561230002932 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 561230002933 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230002934 Walker A/P-loop; other site 561230002935 ATP binding site [chemical binding]; other site 561230002936 Q-loop/lid; other site 561230002937 ABC transporter signature motif; other site 561230002938 Walker B; other site 561230002939 D-loop; other site 561230002940 H-loop/switch region; other site 561230002941 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230002942 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 561230002943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230002944 Walker A/P-loop; other site 561230002945 ATP binding site [chemical binding]; other site 561230002946 Q-loop/lid; other site 561230002947 ABC transporter signature motif; other site 561230002948 Walker B; other site 561230002949 D-loop; other site 561230002950 H-loop/switch region; other site 561230002951 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 561230002952 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 561230002953 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 561230002954 active site 561230002955 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 561230002956 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 561230002957 Walker A/P-loop; other site 561230002958 ATP binding site [chemical binding]; other site 561230002959 Q-loop/lid; other site 561230002960 ABC transporter signature motif; other site 561230002961 Walker B; other site 561230002962 D-loop; other site 561230002963 H-loop/switch region; other site 561230002964 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 561230002965 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 561230002966 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 561230002967 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 561230002968 dimer interface [polypeptide binding]; other site 561230002969 conserved gate region; other site 561230002970 putative PBP binding loops; other site 561230002971 ABC-ATPase subunit interface; other site 561230002972 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 561230002973 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 561230002974 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561230002975 active site 561230002976 catalytic tetrad [active] 561230002977 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 561230002978 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 561230002979 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 561230002980 putative DNA-binding cleft [nucleotide binding]; other site 561230002981 putative DNA clevage site; other site 561230002982 molecular lever; other site 561230002983 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 561230002984 putative active site [active] 561230002985 Ap4A binding site [chemical binding]; other site 561230002986 nudix motif; other site 561230002987 putative metal binding site [ion binding]; other site 561230002988 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 561230002989 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 561230002990 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 561230002991 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 561230002992 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 561230002993 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 561230002994 thymidylate synthase; Reviewed; Region: thyA; PRK01827 561230002995 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 561230002996 dimerization interface [polypeptide binding]; other site 561230002997 active site 561230002998 hypothetical protein; Provisional; Region: PRK10506 561230002999 hypothetical protein; Provisional; Region: PRK10557 561230003000 Protein of unknown function (DUF2509); Region: DUF2509; pfam10713 561230003001 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 561230003002 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 561230003003 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 561230003004 protease3; Provisional; Region: PRK15101 561230003005 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 561230003006 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561230003007 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561230003008 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 561230003009 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 561230003010 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 561230003011 AAA domain; Region: AAA_30; pfam13604 561230003012 Family description; Region: UvrD_C_2; pfam13538 561230003013 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230003014 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230003015 DNA binding site [nucleotide binding] 561230003016 domain linker motif; other site 561230003017 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 561230003018 putative dimerization interface [polypeptide binding]; other site 561230003019 putative ligand binding site [chemical binding]; other site 561230003020 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 561230003021 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 561230003022 active site pocket [active] 561230003023 N-acetylglutamate synthase; Validated; Region: PRK05279 561230003024 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 561230003025 putative feedback inhibition sensing region; other site 561230003026 putative nucleotide binding site [chemical binding]; other site 561230003027 putative substrate binding site [chemical binding]; other site 561230003028 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230003029 Coenzyme A binding pocket [chemical binding]; other site 561230003030 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 561230003031 AMIN domain; Region: AMIN; pfam11741 561230003032 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 561230003033 active site 561230003034 metal binding site [ion binding]; metal-binding site 561230003035 murein transglycosylase A; Provisional; Region: mltA; PRK11162 561230003036 MltA specific insert domain; Region: MltA; smart00925 561230003037 3D domain; Region: 3D; pfam06725 561230003038 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 561230003039 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 561230003040 molybdopterin cofactor binding site [chemical binding]; other site 561230003041 substrate binding site [chemical binding]; other site 561230003042 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 561230003043 molybdopterin cofactor binding site; other site 561230003044 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 561230003045 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 561230003046 putative ATP binding site [chemical binding]; other site 561230003047 putative substrate interface [chemical binding]; other site 561230003048 Fe-S metabolism associated domain; Region: SufE; cl00951 561230003049 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 561230003050 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 561230003051 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230003052 catalytic residue [active] 561230003053 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 561230003054 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 561230003055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230003056 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 561230003057 dimerization interface [polypeptide binding]; other site 561230003058 substrate binding pocket [chemical binding]; other site 561230003059 hypothetical protein; Provisional; Region: PRK10873 561230003060 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 561230003061 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 561230003062 flap endonuclease-like protein; Provisional; Region: PRK09482 561230003063 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 561230003064 active site 561230003065 metal binding site 1 [ion binding]; metal-binding site 561230003066 putative 5' ssDNA interaction site; other site 561230003067 metal binding site 3; metal-binding site 561230003068 metal binding site 2 [ion binding]; metal-binding site 561230003069 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 561230003070 putative DNA binding site [nucleotide binding]; other site 561230003071 putative metal binding site [ion binding]; other site 561230003072 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 561230003073 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 561230003074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 561230003075 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 561230003076 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 561230003077 SecY interacting protein Syd; Provisional; Region: PRK04968 561230003078 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 561230003079 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 561230003080 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 561230003081 probable active site [active] 561230003082 flavodoxin; Provisional; Region: PRK08105 561230003083 hypothetical protein; Provisional; Region: PRK13677 561230003084 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 561230003085 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 561230003086 trimer interface [polypeptide binding]; other site 561230003087 active site 561230003088 substrate binding site [chemical binding]; other site 561230003089 CoA binding site [chemical binding]; other site 561230003090 PII uridylyl-transferase; Provisional; Region: PRK05007 561230003091 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 561230003092 metal binding triad; other site 561230003093 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 561230003094 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 561230003095 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 561230003096 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 561230003097 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 561230003098 active site 561230003099 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 561230003100 rRNA interaction site [nucleotide binding]; other site 561230003101 S8 interaction site; other site 561230003102 putative laminin-1 binding site; other site 561230003103 elongation factor Ts; Provisional; Region: tsf; PRK09377 561230003104 UBA/TS-N domain; Region: UBA; pfam00627 561230003105 Elongation factor TS; Region: EF_TS; pfam00889 561230003106 Elongation factor TS; Region: EF_TS; pfam00889 561230003107 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 561230003108 putative nucleotide binding site [chemical binding]; other site 561230003109 uridine monophosphate binding site [chemical binding]; other site 561230003110 homohexameric interface [polypeptide binding]; other site 561230003111 ribosome recycling factor; Reviewed; Region: frr; PRK00083 561230003112 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 561230003113 hinge region; other site 561230003114 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 561230003115 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 561230003116 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 561230003117 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 561230003118 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 561230003119 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 561230003120 catalytic residue [active] 561230003121 putative FPP diphosphate binding site; other site 561230003122 putative FPP binding hydrophobic cleft; other site 561230003123 dimer interface [polypeptide binding]; other site 561230003124 putative IPP diphosphate binding site; other site 561230003125 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 561230003126 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 561230003127 zinc metallopeptidase RseP; Provisional; Region: PRK10779 561230003128 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 561230003129 active site 561230003130 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 561230003131 protein binding site [polypeptide binding]; other site 561230003132 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 561230003133 protein binding site [polypeptide binding]; other site 561230003134 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 561230003135 putative substrate binding region [chemical binding]; other site 561230003136 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 561230003137 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561230003138 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561230003139 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561230003140 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561230003141 Surface antigen; Region: Bac_surface_Ag; pfam01103 561230003142 periplasmic chaperone; Provisional; Region: PRK10780 561230003143 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 561230003144 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 561230003145 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 561230003146 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 561230003147 trimer interface [polypeptide binding]; other site 561230003148 active site 561230003149 UDP-GlcNAc binding site [chemical binding]; other site 561230003150 lipid binding site [chemical binding]; lipid-binding site 561230003151 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 561230003152 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 561230003153 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 561230003154 active site 561230003155 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 561230003156 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; cd01635 561230003157 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 561230003158 RNA/DNA hybrid binding site [nucleotide binding]; other site 561230003159 active site 561230003160 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 561230003161 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 561230003162 putative active site [active] 561230003163 putative PHP Thumb interface [polypeptide binding]; other site 561230003164 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 561230003165 generic binding surface II; other site 561230003166 generic binding surface I; other site 561230003167 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 561230003168 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 561230003169 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 561230003170 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561230003171 putative metal binding site [ion binding]; other site 561230003172 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 561230003173 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 561230003174 Ligand Binding Site [chemical binding]; other site 561230003175 TilS substrate binding domain; Region: TilS; pfam09179 561230003176 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 561230003177 Rho-binding antiterminator; Provisional; Region: PRK11625 561230003178 hypothetical protein; Provisional; Region: PRK04964 561230003179 YaeQ protein; Region: YaeQ; pfam07152 561230003180 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 561230003181 NlpE N-terminal domain; Region: NlpE; pfam04170 561230003182 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 561230003183 MutS domain I; Region: MutS_I; pfam01624 561230003184 MutS domain II; Region: MutS_II; pfam05188 561230003185 MutS domain III; Region: MutS_III; pfam05192 561230003186 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 561230003187 Walker A/P-loop; other site 561230003188 ATP binding site [chemical binding]; other site 561230003189 Q-loop/lid; other site 561230003190 ABC transporter signature motif; other site 561230003191 Walker B; other site 561230003192 D-loop; other site 561230003193 H-loop/switch region; other site 561230003194 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 561230003195 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561230003196 putative C-terminal domain interface [polypeptide binding]; other site 561230003197 putative GSH binding site (G-site) [chemical binding]; other site 561230003198 putative dimer interface [polypeptide binding]; other site 561230003199 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 561230003200 putative N-terminal domain interface [polypeptide binding]; other site 561230003201 putative dimer interface [polypeptide binding]; other site 561230003202 putative substrate binding pocket (H-site) [chemical binding]; other site 561230003203 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230003204 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230003205 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 561230003206 putative effector binding pocket; other site 561230003207 dimerization interface [polypeptide binding]; other site 561230003208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561230003209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561230003210 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 561230003211 YCII-related domain; Region: YCII; cl00999 561230003212 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 561230003213 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561230003214 Walker A/P-loop; other site 561230003215 ATP binding site [chemical binding]; other site 561230003216 Q-loop/lid; other site 561230003217 ABC transporter signature motif; other site 561230003218 Walker B; other site 561230003219 D-loop; other site 561230003220 H-loop/switch region; other site 561230003221 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561230003222 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 561230003223 ABC-ATPase subunit interface; other site 561230003224 dimer interface [polypeptide binding]; other site 561230003225 putative PBP binding regions; other site 561230003226 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561230003227 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 561230003228 ABC-ATPase subunit interface; other site 561230003229 dimer interface [polypeptide binding]; other site 561230003230 putative PBP binding regions; other site 561230003231 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 561230003232 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 561230003233 siderophore binding site; other site 561230003234 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 561230003235 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 561230003236 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 561230003237 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 561230003238 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 561230003239 PhnA protein; Region: PhnA; pfam03831 561230003240 Transglycosylase SLT domain; Region: SLT_2; pfam13406 561230003241 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 561230003242 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561230003243 catalytic residue [active] 561230003244 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561230003245 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230003246 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230003247 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 561230003248 putative dimerization interface [polypeptide binding]; other site 561230003249 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230003250 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230003251 metal binding site [ion binding]; metal-binding site 561230003252 active site 561230003253 I-site; other site 561230003254 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 561230003255 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 561230003256 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 561230003257 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 561230003258 Esterase/lipase [General function prediction only]; Region: COG1647 561230003259 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 561230003260 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230003261 DNA-binding site [nucleotide binding]; DNA binding site 561230003262 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 561230003263 mannonate dehydratase; Provisional; Region: PRK03906 561230003264 mannonate dehydratase; Region: uxuA; TIGR00695 561230003265 Pectate lyase; Region: Pectate_lyase; pfam03211 561230003266 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 561230003267 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 561230003268 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 561230003269 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230003270 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230003271 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 561230003272 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561230003273 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 561230003274 Walker A/P-loop; other site 561230003275 ATP binding site [chemical binding]; other site 561230003276 Q-loop/lid; other site 561230003277 ABC transporter signature motif; other site 561230003278 Walker B; other site 561230003279 D-loop; other site 561230003280 H-loop/switch region; other site 561230003281 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 561230003282 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003283 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003284 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003285 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003286 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003287 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003288 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003289 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003290 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003291 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003292 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003293 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003294 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003295 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003296 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003297 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003298 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003299 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003300 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003301 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003302 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003303 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003304 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003305 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003306 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003307 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003308 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 561230003309 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003310 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230003311 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 561230003312 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561230003313 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 561230003314 Walker A/P-loop; other site 561230003315 ATP binding site [chemical binding]; other site 561230003316 Q-loop/lid; other site 561230003317 ABC transporter signature motif; other site 561230003318 Walker B; other site 561230003319 D-loop; other site 561230003320 H-loop/switch region; other site 561230003321 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 561230003322 active site 561230003323 homodimer interface [polypeptide binding]; other site 561230003324 homotetramer interface [polypeptide binding]; other site 561230003325 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 561230003326 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 561230003327 ADP binding site [chemical binding]; other site 561230003328 magnesium binding site [ion binding]; other site 561230003329 putative shikimate binding site; other site 561230003330 hypothetical protein; Provisional; Region: PRK10579 561230003331 nucleoside transporter; Region: 2A0110; TIGR00889 561230003332 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 561230003333 putative substrate translocation pore; other site 561230003334 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 561230003335 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 561230003336 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561230003337 substrate binding site [chemical binding]; other site 561230003338 ATP binding site [chemical binding]; other site 561230003339 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 561230003340 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230003341 DNA-binding site [nucleotide binding]; DNA binding site 561230003342 UTRA domain; Region: UTRA; pfam07702 561230003343 Cache domain; Region: Cache_1; pfam02743 561230003344 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561230003345 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 561230003346 dimerization interface [polypeptide binding]; other site 561230003347 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230003348 dimer interface [polypeptide binding]; other site 561230003349 putative CheW interface [polypeptide binding]; other site 561230003350 recombination associated protein; Reviewed; Region: rdgC; PRK00321 561230003351 fructokinase; Reviewed; Region: PRK09557 561230003352 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561230003353 nucleotide binding site [chemical binding]; other site 561230003354 Acetokinase family; Region: Acetate_kinase; cl17229 561230003355 exonuclease subunit SbcC; Provisional; Region: PRK10246 561230003356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230003357 Walker A/P-loop; other site 561230003358 ATP binding site [chemical binding]; other site 561230003359 Q-loop/lid; other site 561230003360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230003361 Q-loop/lid; other site 561230003362 ABC transporter signature motif; other site 561230003363 Walker B; other site 561230003364 D-loop; other site 561230003365 H-loop/switch region; other site 561230003366 exonuclease subunit SbcD; Provisional; Region: PRK10966 561230003367 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 561230003368 active site 561230003369 metal binding site [ion binding]; metal-binding site 561230003370 DNA binding site [nucleotide binding] 561230003371 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 561230003372 transcriptional regulator PhoB; Provisional; Region: PRK10161 561230003373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230003374 active site 561230003375 phosphorylation site [posttranslational modification] 561230003376 intermolecular recognition site; other site 561230003377 dimerization interface [polypeptide binding]; other site 561230003378 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 561230003379 DNA binding site [nucleotide binding] 561230003380 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 561230003381 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 561230003382 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 561230003383 putative active site [active] 561230003384 heme pocket [chemical binding]; other site 561230003385 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 561230003386 dimer interface [polypeptide binding]; other site 561230003387 phosphorylation site [posttranslational modification] 561230003388 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 561230003389 ATP binding site [chemical binding]; other site 561230003390 Mg2+ binding site [ion binding]; other site 561230003391 G-X-G motif; other site 561230003392 PBP superfamily domain; Region: PBP_like_2; cl17296 561230003393 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 561230003394 substrate binding site [chemical binding]; other site 561230003395 THF binding site; other site 561230003396 zinc-binding site [ion binding]; other site 561230003397 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 561230003398 putative proline-specific permease; Provisional; Region: proY; PRK10580 561230003399 Spore germination protein; Region: Spore_permease; cl17796 561230003400 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 561230003401 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561230003402 peroxidase; Provisional; Region: PRK15000 561230003403 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 561230003404 dimer interface [polypeptide binding]; other site 561230003405 decamer (pentamer of dimers) interface [polypeptide binding]; other site 561230003406 catalytic triad [active] 561230003407 peroxidatic and resolving cysteines [active] 561230003408 Protein of unknown function, DUF479; Region: DUF479; cl01203 561230003409 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 561230003410 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 561230003411 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 561230003412 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 561230003413 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 561230003414 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 561230003415 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 561230003416 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 561230003417 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 561230003418 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 561230003419 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 561230003420 Protein export membrane protein; Region: SecD_SecF; pfam02355 561230003421 hypothetical protein; Provisional; Region: PRK11530 561230003422 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 561230003423 ATP cone domain; Region: ATP-cone; pfam03477 561230003424 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 561230003425 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 561230003426 catalytic motif [active] 561230003427 Zn binding site [ion binding]; other site 561230003428 RibD C-terminal domain; Region: RibD_C; cl17279 561230003429 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 561230003430 homopentamer interface [polypeptide binding]; other site 561230003431 active site 561230003432 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 561230003433 putative RNA binding site [nucleotide binding]; other site 561230003434 thiamine monophosphate kinase; Provisional; Region: PRK05731 561230003435 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 561230003436 ATP binding site [chemical binding]; other site 561230003437 dimerization interface [polypeptide binding]; other site 561230003438 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 561230003439 tetramer interfaces [polypeptide binding]; other site 561230003440 binuclear metal-binding site [ion binding]; other site 561230003441 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 561230003442 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 561230003443 TPP-binding site; other site 561230003444 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 561230003445 PYR/PP interface [polypeptide binding]; other site 561230003446 dimer interface [polypeptide binding]; other site 561230003447 TPP binding site [chemical binding]; other site 561230003448 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 561230003449 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 561230003450 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 561230003451 substrate binding pocket [chemical binding]; other site 561230003452 chain length determination region; other site 561230003453 substrate-Mg2+ binding site; other site 561230003454 catalytic residues [active] 561230003455 aspartate-rich region 1; other site 561230003456 active site lid residues [active] 561230003457 aspartate-rich region 2; other site 561230003458 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 561230003459 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 561230003460 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 561230003461 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 561230003462 Ligand Binding Site [chemical binding]; other site 561230003463 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 561230003464 active site residue [active] 561230003465 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 561230003466 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 561230003467 conserved cys residue [active] 561230003468 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 561230003469 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 561230003470 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 561230003471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 561230003472 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 561230003473 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 561230003474 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230003475 putative substrate translocation pore; other site 561230003476 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 561230003477 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 561230003478 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561230003479 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 561230003480 UbiA prenyltransferase family; Region: UbiA; pfam01040 561230003481 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 561230003482 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 561230003483 Subunit I/III interface [polypeptide binding]; other site 561230003484 Subunit III/IV interface [polypeptide binding]; other site 561230003485 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 561230003486 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 561230003487 D-pathway; other site 561230003488 Putative ubiquinol binding site [chemical binding]; other site 561230003489 Low-spin heme (heme b) binding site [chemical binding]; other site 561230003490 Putative water exit pathway; other site 561230003491 Binuclear center (heme o3/CuB) [ion binding]; other site 561230003492 K-pathway; other site 561230003493 Putative proton exit pathway; other site 561230003494 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 561230003495 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 561230003496 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 561230003497 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 561230003498 muropeptide transporter; Reviewed; Region: ampG; PRK11902 561230003499 putative substrate translocation pore; other site 561230003500 hypothetical protein; Provisional; Region: PRK11627 561230003501 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 561230003502 transcriptional regulator BolA; Provisional; Region: PRK11628 561230003503 trigger factor; Provisional; Region: tig; PRK01490 561230003504 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561230003505 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 561230003506 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 561230003507 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 561230003508 oligomer interface [polypeptide binding]; other site 561230003509 active site residues [active] 561230003510 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 561230003511 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 561230003512 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 561230003513 Walker A motif; other site 561230003514 ATP binding site [chemical binding]; other site 561230003515 Walker B motif; other site 561230003516 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 561230003517 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 561230003518 Found in ATP-dependent protease La (LON); Region: LON; smart00464 561230003519 Found in ATP-dependent protease La (LON); Region: LON; smart00464 561230003520 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 561230003521 Walker A motif; other site 561230003522 ATP binding site [chemical binding]; other site 561230003523 Walker B motif; other site 561230003524 arginine finger; other site 561230003525 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 561230003526 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 561230003527 IHF dimer interface [polypeptide binding]; other site 561230003528 IHF - DNA interface [nucleotide binding]; other site 561230003529 periplasmic folding chaperone; Provisional; Region: PRK10788 561230003530 SurA N-terminal domain; Region: SurA_N_3; cl07813 561230003531 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 561230003532 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 561230003533 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 561230003534 active site 561230003535 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 561230003536 Ligand Binding Site [chemical binding]; other site 561230003537 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 561230003538 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 561230003539 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230003540 catalytic residue [active] 561230003541 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 561230003542 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 561230003543 putative DNA binding site [nucleotide binding]; other site 561230003544 putative Zn2+ binding site [ion binding]; other site 561230003545 AsnC family; Region: AsnC_trans_reg; pfam01037 561230003546 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 561230003547 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561230003548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230003549 Walker A/P-loop; other site 561230003550 ATP binding site [chemical binding]; other site 561230003551 Q-loop/lid; other site 561230003552 ABC transporter signature motif; other site 561230003553 Walker B; other site 561230003554 D-loop; other site 561230003555 H-loop/switch region; other site 561230003556 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 561230003557 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561230003558 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 561230003559 Walker A/P-loop; other site 561230003560 ATP binding site [chemical binding]; other site 561230003561 Q-loop/lid; other site 561230003562 ABC transporter signature motif; other site 561230003563 Walker B; other site 561230003564 D-loop; other site 561230003565 H-loop/switch region; other site 561230003566 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 561230003567 Nitrogen regulatory protein P-II; Region: P-II; smart00938 561230003568 ammonium transporter; Provisional; Region: PRK10666 561230003569 acyl-CoA thioesterase II; Provisional; Region: PRK10526 561230003570 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 561230003571 active site 561230003572 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 561230003573 catalytic triad [active] 561230003574 dimer interface [polypeptide binding]; other site 561230003575 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; pfam09619 561230003576 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 561230003577 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 561230003578 DNA binding site [nucleotide binding] 561230003579 active site 561230003580 gene expression modulator; Provisional; Region: PRK10945 561230003581 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 561230003582 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 561230003583 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 561230003584 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 561230003585 Protein export membrane protein; Region: SecD_SecF; cl14618 561230003586 Protein export membrane protein; Region: SecD_SecF; cl14618 561230003587 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 561230003588 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230003589 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230003590 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 561230003591 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230003592 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 561230003593 hypothetical protein; Provisional; Region: PRK11038 561230003594 Primosomal replication protein priB and priC; Region: priB_priC; pfam07445 561230003595 hypothetical protein; Provisional; Region: PRK10527 561230003596 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561230003597 active site 561230003598 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 561230003599 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 561230003600 Walker A motif; other site 561230003601 ATP binding site [chemical binding]; other site 561230003602 Walker B motif; other site 561230003603 DNA polymerase III subunit delta'; Validated; Region: PRK08485 561230003604 arginine finger; other site 561230003605 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 561230003606 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 561230003607 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 561230003608 hypothetical protein; Validated; Region: PRK00153 561230003609 recombination protein RecR; Reviewed; Region: recR; PRK00076 561230003610 RecR protein; Region: RecR; pfam02132 561230003611 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 561230003612 putative active site [active] 561230003613 putative metal-binding site [ion binding]; other site 561230003614 tetramer interface [polypeptide binding]; other site 561230003615 heat shock protein 90; Provisional; Region: PRK05218 561230003616 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 561230003617 ATP binding site [chemical binding]; other site 561230003618 Mg2+ binding site [ion binding]; other site 561230003619 G-X-G motif; other site 561230003620 adenylate kinase; Reviewed; Region: adk; PRK00279 561230003621 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 561230003622 AMP-binding site [chemical binding]; other site 561230003623 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 561230003624 ferrochelatase; Reviewed; Region: hemH; PRK00035 561230003625 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 561230003626 C-terminal domain interface [polypeptide binding]; other site 561230003627 active site 561230003628 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 561230003629 active site 561230003630 N-terminal domain interface [polypeptide binding]; other site 561230003631 putative cation:proton antiport protein; Provisional; Region: PRK10669 561230003632 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 561230003633 TrkA-N domain; Region: TrkA_N; pfam02254 561230003634 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 561230003635 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 561230003636 active site 561230003637 metal binding site [ion binding]; metal-binding site 561230003638 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 561230003639 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 561230003640 sugar binding site [chemical binding]; other site 561230003641 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 561230003642 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 561230003643 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 561230003644 active site 561230003645 catalytic triad [active] 561230003646 oxyanion hole [active] 561230003647 carbon starvation protein A; Provisional; Region: PRK15015 561230003648 Carbon starvation protein CstA; Region: CstA; pfam02554 561230003649 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 561230003650 Uncharacterized small protein [Function unknown]; Region: COG2879 561230003651 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 561230003652 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 561230003653 P-loop, Walker A motif; other site 561230003654 Base recognition motif; other site 561230003655 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 561230003656 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 561230003657 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 561230003658 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 561230003659 putative deacylase active site [active] 561230003660 TraB family; Region: TraB; cl12050 561230003661 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 561230003662 metal-binding site [ion binding] 561230003663 copper exporting ATPase; Provisional; Region: copA; PRK10671 561230003664 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 561230003665 metal-binding site [ion binding] 561230003666 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 561230003667 metal-binding site [ion binding] 561230003668 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 561230003669 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 561230003670 motif II; other site 561230003671 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 561230003672 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 561230003673 DNA binding residues [nucleotide binding] 561230003674 dimer interface [polypeptide binding]; other site 561230003675 copper binding site [ion binding]; other site 561230003676 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 561230003677 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 561230003678 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 561230003679 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 561230003680 catalytic loop [active] 561230003681 iron binding site [ion binding]; other site 561230003682 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 561230003683 dimer interface [polypeptide binding]; other site 561230003684 putative radical transfer pathway; other site 561230003685 diiron center [ion binding]; other site 561230003686 tyrosyl radical; other site 561230003687 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 561230003688 ATP cone domain; Region: ATP-cone; pfam03477 561230003689 Class I ribonucleotide reductase; Region: RNR_I; cd01679 561230003690 active site 561230003691 dimer interface [polypeptide binding]; other site 561230003692 catalytic residues [active] 561230003693 effector binding site; other site 561230003694 R2 peptide binding site; other site 561230003695 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 561230003696 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 561230003697 S-adenosylmethionine binding site [chemical binding]; other site 561230003698 DNA gyrase subunit A; Validated; Region: PRK05560 561230003699 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 561230003700 CAP-like domain; other site 561230003701 active site 561230003702 primary dimer interface [polypeptide binding]; other site 561230003703 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561230003704 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561230003705 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561230003706 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561230003707 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561230003708 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561230003709 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 561230003710 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 561230003711 dimer interface [polypeptide binding]; other site 561230003712 phosphorylation site [posttranslational modification] 561230003713 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 561230003714 ATP binding site [chemical binding]; other site 561230003715 Mg2+ binding site [ion binding]; other site 561230003716 G-X-G motif; other site 561230003717 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 561230003718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230003719 active site 561230003720 phosphorylation site [posttranslational modification] 561230003721 intermolecular recognition site; other site 561230003722 dimerization interface [polypeptide binding]; other site 561230003723 transcriptional regulator RcsB; Provisional; Region: PRK10840 561230003724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230003725 active site 561230003726 phosphorylation site [posttranslational modification] 561230003727 intermolecular recognition site; other site 561230003728 dimerization interface [polypeptide binding]; other site 561230003729 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 561230003730 DNA binding residues [nucleotide binding] 561230003731 dimerization interface [polypeptide binding]; other site 561230003732 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 561230003733 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 561230003734 ATP binding site [chemical binding]; other site 561230003735 G-X-G motif; other site 561230003736 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 561230003737 putative binding surface; other site 561230003738 active site 561230003739 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 561230003740 chorismate binding enzyme; Region: Chorismate_bind; cl10555 561230003741 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 561230003742 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 561230003743 dimer interface [polypeptide binding]; other site 561230003744 tetramer interface [polypeptide binding]; other site 561230003745 PYR/PP interface [polypeptide binding]; other site 561230003746 TPP binding site [chemical binding]; other site 561230003747 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 561230003748 TPP-binding site; other site 561230003749 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 561230003750 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 561230003751 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 561230003752 substrate binding site [chemical binding]; other site 561230003753 oxyanion hole (OAH) forming residues; other site 561230003754 trimer interface [polypeptide binding]; other site 561230003755 O-succinylbenzoate synthase; Provisional; Region: PRK05105 561230003756 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 561230003757 active site 561230003758 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 561230003759 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 561230003760 acyl-activating enzyme (AAE) consensus motif; other site 561230003761 putative AMP binding site [chemical binding]; other site 561230003762 putative active site [active] 561230003763 putative CoA binding site [chemical binding]; other site 561230003764 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 561230003765 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 561230003766 tyrosine transporter TyrP; Provisional; Region: PRK15132 561230003767 aromatic amino acid transport protein; Region: araaP; TIGR00837 561230003768 hypothetical protein; Provisional; Region: PRK03673 561230003769 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 561230003770 putative MPT binding site; other site 561230003771 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 561230003772 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 561230003773 oxidoreductase; Provisional; Region: PRK08017 561230003774 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 561230003775 NADP binding site [chemical binding]; other site 561230003776 active site 561230003777 steroid binding site; other site 561230003778 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 561230003779 active site 561230003780 catalytic triad [active] 561230003781 oxyanion hole [active] 561230003782 switch loop; other site 561230003783 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 561230003784 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561230003785 Walker A/P-loop; other site 561230003786 ATP binding site [chemical binding]; other site 561230003787 Q-loop/lid; other site 561230003788 ABC transporter signature motif; other site 561230003789 Walker B; other site 561230003790 D-loop; other site 561230003791 H-loop/switch region; other site 561230003792 FtsX-like permease family; Region: FtsX; pfam02687 561230003793 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 561230003794 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230003795 Coenzyme A binding pocket [chemical binding]; other site 561230003796 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561230003797 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 561230003798 N-terminal plug; other site 561230003799 ligand-binding site [chemical binding]; other site 561230003800 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 561230003801 putative ligand binding residues [chemical binding]; other site 561230003802 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 561230003803 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 561230003804 active site 561230003805 substrate binding site [chemical binding]; other site 561230003806 cosubstrate binding site; other site 561230003807 catalytic site [active] 561230003808 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 561230003809 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 561230003810 dimerization interface [polypeptide binding]; other site 561230003811 putative ATP binding site [chemical binding]; other site 561230003812 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561230003813 active site 561230003814 uracil transporter; Provisional; Region: PRK10720 561230003815 DNA replication initiation factor; Provisional; Region: PRK08084 561230003816 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 561230003817 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 561230003818 ArsC family; Region: ArsC; pfam03960 561230003819 catalytic residues [active] 561230003820 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 561230003821 Peptidase family M48; Region: Peptidase_M48; pfam01435 561230003822 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 561230003823 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 561230003824 catalytic triad [active] 561230003825 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 561230003826 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 561230003827 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 561230003828 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561230003829 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230003830 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230003831 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 561230003832 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 561230003833 dihydrodipicolinate synthase; Region: dapA; TIGR00674 561230003834 dimer interface [polypeptide binding]; other site 561230003835 active site 561230003836 catalytic residue [active] 561230003837 lipoprotein; Provisional; Region: PRK11679 561230003838 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 561230003839 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 561230003840 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 561230003841 ATP binding site [chemical binding]; other site 561230003842 active site 561230003843 substrate binding site [chemical binding]; other site 561230003844 Predicted membrane protein [Function unknown]; Region: COG2707 561230003845 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 561230003846 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 561230003847 Helicase; Region: Helicase_RecD; pfam05127 561230003848 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 561230003849 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 561230003850 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 561230003851 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 561230003852 catalytic residues [active] 561230003853 protease TldD; Provisional; Region: tldD; PRK10735 561230003854 peptidase PmbA; Provisional; Region: PRK11040 561230003855 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 561230003856 TolR protein; Region: tolR; TIGR02801 561230003857 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 561230003858 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 561230003859 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 561230003860 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 561230003861 FecR protein; Region: FecR; pfam04773 561230003862 RNA polymerase sigma factor; Provisional; Region: PRK12525 561230003863 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230003864 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 561230003865 DNA binding residues [nucleotide binding] 561230003866 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561230003867 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 561230003868 N-terminal plug; other site 561230003869 ligand-binding site [chemical binding]; other site 561230003870 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 561230003871 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 561230003872 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 561230003873 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 561230003874 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561230003875 Predicted ATPase [General function prediction only]; Region: COG3910 561230003876 ATP-binding cassette domain of non-transporter proteins; Region: ABC_Class2; cd03227 561230003877 Walker A/P-loop; other site 561230003878 ATP binding site [chemical binding]; other site 561230003879 Q-loop/lid; other site 561230003880 ABC transporter signature motif; other site 561230003881 Walker B; other site 561230003882 D-loop; other site 561230003883 H-loop/switch region; other site 561230003884 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 561230003885 catalytic triad [active] 561230003886 putative active site [active] 561230003887 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 561230003888 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 561230003889 Autotransporter beta-domain; Region: Autotransporter; smart00869 561230003890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 561230003891 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 561230003892 putative hydrolase; Provisional; Region: PRK11460 561230003893 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 561230003894 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 561230003895 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561230003896 dimer interface [polypeptide binding]; other site 561230003897 ligand binding site [chemical binding]; other site 561230003898 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 561230003899 dimerization interface [polypeptide binding]; other site 561230003900 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230003901 dimer interface [polypeptide binding]; other site 561230003902 putative CheW interface [polypeptide binding]; other site 561230003903 putative acyltransferase; Provisional; Region: PRK05790 561230003904 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 561230003905 dimer interface [polypeptide binding]; other site 561230003906 active site 561230003907 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 561230003908 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 561230003909 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 561230003910 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 561230003911 Citrate transporter; Region: CitMHS; pfam03600 561230003912 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230003913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230003914 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 561230003915 putative dimerization interface [polypeptide binding]; other site 561230003916 Uncharacterized protein family (UPF0370); Region: UPF0370; pfam13980 561230003917 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 561230003918 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 561230003919 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 561230003920 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 561230003921 metal binding site [ion binding]; metal-binding site 561230003922 dimer interface [polypeptide binding]; other site 561230003923 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 561230003924 ArsC family; Region: ArsC; pfam03960 561230003925 putative catalytic residues [active] 561230003926 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 561230003927 aspartate racemase; Region: asp_race; TIGR00035 561230003928 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 561230003929 DNA-binding site [nucleotide binding]; DNA binding site 561230003930 RNA-binding motif; other site 561230003931 chromosome condensation membrane protein; Provisional; Region: PRK14196 561230003932 twin arginine translocase protein A; Validated; Region: tatE; PRK01614 561230003933 lipoyl synthase; Provisional; Region: PRK05481 561230003934 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 561230003935 FeS/SAM binding site; other site 561230003936 lipoate-protein ligase B; Provisional; Region: PRK14342 561230003937 hypothetical protein; Provisional; Region: PRK04998 561230003938 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 561230003939 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 561230003940 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 561230003941 rare lipoprotein A; Provisional; Region: PRK10672 561230003942 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 561230003943 Sporulation related domain; Region: SPOR; pfam05036 561230003944 cell wall shape-determining protein; Provisional; Region: PRK10794 561230003945 penicillin-binding protein 2; Provisional; Region: PRK10795 561230003946 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 561230003947 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 561230003948 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 561230003949 ribosome-associated protein; Provisional; Region: PRK11538 561230003950 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 561230003951 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 561230003952 active site 561230003953 (T/H)XGH motif; other site 561230003954 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 561230003955 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 561230003956 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 561230003957 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 561230003958 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 561230003959 HIGH motif; other site 561230003960 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 561230003961 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 561230003962 active site 561230003963 KMSKS motif; other site 561230003964 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 561230003965 tRNA binding surface [nucleotide binding]; other site 561230003966 hypothetical protein; Provisional; Region: PRK11032 561230003967 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561230003968 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561230003969 Walker A/P-loop; other site 561230003970 ATP binding site [chemical binding]; other site 561230003971 Q-loop/lid; other site 561230003972 ABC transporter signature motif; other site 561230003973 Walker B; other site 561230003974 D-loop; other site 561230003975 H-loop/switch region; other site 561230003976 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230003977 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 561230003978 dimer interface [polypeptide binding]; other site 561230003979 conserved gate region; other site 561230003980 putative PBP binding loops; other site 561230003981 ABC-ATPase subunit interface; other site 561230003982 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230003983 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 561230003984 dimer interface [polypeptide binding]; other site 561230003985 conserved gate region; other site 561230003986 putative PBP binding loops; other site 561230003987 ABC-ATPase subunit interface; other site 561230003988 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 561230003989 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 561230003990 substrate binding pocket [chemical binding]; other site 561230003991 membrane-bound complex binding site; other site 561230003992 hinge residues; other site 561230003993 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 561230003994 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 561230003995 putative active site [active] 561230003996 catalytic triad [active] 561230003997 putative dimer interface [polypeptide binding]; other site 561230003998 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 561230003999 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 561230004000 Transporter associated domain; Region: CorC_HlyC; smart01091 561230004001 metal-binding heat shock protein; Provisional; Region: PRK00016 561230004002 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 561230004003 PhoH-like protein; Region: PhoH; pfam02562 561230004004 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 561230004005 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 561230004006 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 561230004007 FeS/SAM binding site; other site 561230004008 TRAM domain; Region: TRAM; pfam01938 561230004009 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 561230004010 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 561230004011 asparagine synthetase B; Provisional; Region: asnB; PRK09431 561230004012 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 561230004013 active site 561230004014 dimer interface [polypeptide binding]; other site 561230004015 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 561230004016 Ligand Binding Site [chemical binding]; other site 561230004017 Molecular Tunnel; other site 561230004018 MarR family; Region: MarR; pfam01047 561230004019 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 561230004020 ROK family; Region: ROK; pfam00480 561230004021 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 561230004022 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 561230004023 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 561230004024 active site 561230004025 dimer interface [polypeptide binding]; other site 561230004026 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 561230004027 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 561230004028 active site 561230004029 trimer interface [polypeptide binding]; other site 561230004030 allosteric site; other site 561230004031 active site lid [active] 561230004032 hexamer (dimer of trimers) interface [polypeptide binding]; other site 561230004033 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561230004034 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 561230004035 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 561230004036 active site turn [active] 561230004037 phosphorylation site [posttranslational modification] 561230004038 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 561230004039 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 561230004040 active site 561230004041 HIGH motif; other site 561230004042 nucleotide binding site [chemical binding]; other site 561230004043 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 561230004044 KMSKS motif; other site 561230004045 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 561230004046 ferric uptake regulator; Provisional; Region: fur; PRK09462 561230004047 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 561230004048 metal binding site 2 [ion binding]; metal-binding site 561230004049 putative DNA binding helix; other site 561230004050 metal binding site 1 [ion binding]; metal-binding site 561230004051 dimer interface [polypeptide binding]; other site 561230004052 structural Zn2+ binding site [ion binding]; other site 561230004053 flavodoxin FldA; Validated; Region: PRK09267 561230004054 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 561230004055 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 561230004056 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230004057 dimer interface [polypeptide binding]; other site 561230004058 putative CheW interface [polypeptide binding]; other site 561230004059 LexA regulated protein; Provisional; Region: PRK11675 561230004060 acyl-CoA esterase; Provisional; Region: PRK10673 561230004061 PGAP1-like protein; Region: PGAP1; pfam07819 561230004062 replication initiation regulator SeqA; Provisional; Region: PRK11187 561230004063 phosphoglucomutase; Validated; Region: PRK07564 561230004064 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 561230004065 active site 561230004066 substrate binding site [chemical binding]; other site 561230004067 metal binding site [ion binding]; metal-binding site 561230004068 Predicted membrane protein [Function unknown]; Region: COG2510 561230004069 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 561230004070 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230004071 active site 561230004072 phosphorylation site [posttranslational modification] 561230004073 intermolecular recognition site; other site 561230004074 dimerization interface [polypeptide binding]; other site 561230004075 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 561230004076 DNA binding site [nucleotide binding] 561230004077 sensor protein KdpD; Provisional; Region: PRK10490 561230004078 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 561230004079 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 561230004080 Ligand Binding Site [chemical binding]; other site 561230004081 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 561230004082 GAF domain; Region: GAF_3; pfam13492 561230004083 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 561230004084 dimer interface [polypeptide binding]; other site 561230004085 phosphorylation site [posttranslational modification] 561230004086 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 561230004087 ATP binding site [chemical binding]; other site 561230004088 Mg2+ binding site [ion binding]; other site 561230004089 G-X-G motif; other site 561230004090 K+-transporting ATPase, c chain; Region: KdpC; cl00944 561230004091 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 561230004092 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 561230004093 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 561230004094 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 561230004095 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561230004096 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 561230004097 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 561230004098 dimer interface [polypeptide binding]; other site 561230004099 conserved gate region; other site 561230004100 putative PBP binding loops; other site 561230004101 ABC-ATPase subunit interface; other site 561230004102 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 561230004103 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561230004104 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561230004105 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 561230004106 Walker A/P-loop; other site 561230004107 ATP binding site [chemical binding]; other site 561230004108 Q-loop/lid; other site 561230004109 ABC transporter signature motif; other site 561230004110 Walker B; other site 561230004111 D-loop; other site 561230004112 H-loop/switch region; other site 561230004113 Protein of unknown function (DUF523); Region: DUF523; pfam04463 561230004114 Uncharacterized conserved protein [Function unknown]; Region: COG3272 561230004115 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 561230004116 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 561230004117 DNA photolyase; Region: DNA_photolyase; pfam00875 561230004118 Uncharacterized conserved protein [Function unknown]; Region: COG0327 561230004119 metal-binding protein; Provisional; Region: PRK10799 561230004120 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 561230004121 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 561230004122 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 561230004123 LamB/YcsF family protein; Provisional; Region: PRK05406 561230004124 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 561230004125 putative substrate binding pocket [chemical binding]; other site 561230004126 AC domain interface; other site 561230004127 catalytic triad [active] 561230004128 AB domain interface; other site 561230004129 interchain disulfide; other site 561230004130 endonuclease VIII; Provisional; Region: PRK10445 561230004131 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 561230004132 DNA binding site [nucleotide binding] 561230004133 catalytic residue [active] 561230004134 H2TH interface [polypeptide binding]; other site 561230004135 putative catalytic residues [active] 561230004136 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 561230004137 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 561230004138 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 561230004139 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 561230004140 dimer interface [polypeptide binding]; other site 561230004141 active site 561230004142 citrylCoA binding site [chemical binding]; other site 561230004143 NADH binding [chemical binding]; other site 561230004144 cationic pore residues; other site 561230004145 oxalacetate/citrate binding site [chemical binding]; other site 561230004146 coenzyme A binding site [chemical binding]; other site 561230004147 catalytic triad [active] 561230004148 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 561230004149 Iron-sulfur protein interface; other site 561230004150 proximal quinone binding site [chemical binding]; other site 561230004151 SdhD (CybS) interface [polypeptide binding]; other site 561230004152 proximal heme binding site [chemical binding]; other site 561230004153 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 561230004154 SdhC subunit interface [polypeptide binding]; other site 561230004155 proximal heme binding site [chemical binding]; other site 561230004156 cardiolipin binding site; other site 561230004157 Iron-sulfur protein interface; other site 561230004158 proximal quinone binding site [chemical binding]; other site 561230004159 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 561230004160 L-aspartate oxidase; Provisional; Region: PRK06175 561230004161 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 561230004162 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 561230004163 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 561230004164 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 561230004165 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 561230004166 TPP-binding site [chemical binding]; other site 561230004167 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 561230004168 dimer interface [polypeptide binding]; other site 561230004169 PYR/PP interface [polypeptide binding]; other site 561230004170 TPP binding site [chemical binding]; other site 561230004171 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 561230004172 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 561230004173 E3 interaction surface; other site 561230004174 lipoyl attachment site [posttranslational modification]; other site 561230004175 e3 binding domain; Region: E3_binding; pfam02817 561230004176 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 561230004177 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 561230004178 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 561230004179 CoA-ligase; Region: Ligase_CoA; pfam00549 561230004180 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 561230004181 CoA binding domain; Region: CoA_binding; smart00881 561230004182 CoA-ligase; Region: Ligase_CoA; pfam00549 561230004183 TPR repeat; Region: TPR_11; pfam13414 561230004184 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 561230004185 TPR motif; other site 561230004186 binding surface 561230004187 Tetratricopeptide repeat; Region: TPR_12; pfam13424 561230004188 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 561230004189 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 561230004190 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 561230004191 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 561230004192 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 561230004193 hypothetical protein; Provisional; Region: PRK10588 561230004194 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 561230004195 active site 561230004196 colicin uptake protein TolQ; Provisional; Region: PRK10801 561230004197 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 561230004198 colicin uptake protein TolR; Provisional; Region: PRK11024 561230004199 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 561230004200 TolA C-terminal; Region: TolA; pfam06519 561230004201 translocation protein TolB; Provisional; Region: tolB; PRK03629 561230004202 TolB amino-terminal domain; Region: TolB_N; pfam04052 561230004203 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 561230004204 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 561230004205 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 561230004206 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 561230004207 ligand binding site [chemical binding]; other site 561230004208 tol-pal system protein YbgF; Provisional; Region: PRK10803 561230004209 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 561230004210 TPR motif; other site 561230004211 binding surface 561230004212 Protein of unknown function (DUF554); Region: DUF554; pfam04474 561230004213 hypothetical protein; Provisional; Region: PRK10039 561230004214 quinolinate synthetase; Provisional; Region: PRK09375 561230004215 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 561230004216 zinc transporter ZitB; Provisional; Region: PRK03557 561230004217 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 561230004218 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561230004219 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 561230004220 catalytic core [active] 561230004221 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 561230004222 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 561230004223 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 561230004224 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230004225 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 561230004226 Outer membrane efflux protein; Region: OEP; pfam02321 561230004227 Outer membrane efflux protein; Region: OEP; pfam02321 561230004228 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 561230004229 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 561230004230 active site 561230004231 catalytic residues [active] 561230004232 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 561230004233 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 561230004234 NAD binding site [chemical binding]; other site 561230004235 homodimer interface [polypeptide binding]; other site 561230004236 active site 561230004237 substrate binding site [chemical binding]; other site 561230004238 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 561230004239 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 561230004240 Walker A/P-loop; other site 561230004241 ATP binding site [chemical binding]; other site 561230004242 Q-loop/lid; other site 561230004243 ABC transporter signature motif; other site 561230004244 Walker B; other site 561230004245 D-loop; other site 561230004246 H-loop/switch region; other site 561230004247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230004248 Walker A/P-loop; other site 561230004249 ATP binding site [chemical binding]; other site 561230004250 Q-loop/lid; other site 561230004251 ABC transporter signature motif; other site 561230004252 Walker B; other site 561230004253 D-loop; other site 561230004254 H-loop/switch region; other site 561230004255 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 561230004256 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 561230004257 molybdenum-pterin binding domain; Region: Mop; TIGR00638 561230004258 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 561230004259 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 561230004260 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 561230004261 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561230004262 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561230004263 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 561230004264 dimer interface [polypeptide binding]; other site 561230004265 conserved gate region; other site 561230004266 putative PBP binding loops; other site 561230004267 ABC-ATPase subunit interface; other site 561230004268 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 561230004269 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230004270 Walker A/P-loop; other site 561230004271 ATP binding site [chemical binding]; other site 561230004272 Q-loop/lid; other site 561230004273 ABC transporter signature motif; other site 561230004274 Walker B; other site 561230004275 D-loop; other site 561230004276 H-loop/switch region; other site 561230004277 molybdenum-pterin binding domain; Region: Mop; TIGR00638 561230004278 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 561230004279 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230004280 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230004281 DNA binding site [nucleotide binding] 561230004282 domain linker motif; other site 561230004283 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 561230004284 dimerization interface [polypeptide binding]; other site 561230004285 ligand binding site [chemical binding]; other site 561230004286 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561230004287 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561230004288 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561230004289 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 561230004290 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 561230004291 Metal-binding active site; metal-binding site 561230004292 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 561230004293 nucleoside transporter; Region: 2A0110; TIGR00889 561230004294 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 561230004295 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 561230004296 active site 561230004297 motif I; other site 561230004298 motif II; other site 561230004299 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561230004300 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 561230004301 6-phosphogluconolactonase; Provisional; Region: PRK11028 561230004302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 561230004303 Uncharacterized conserved protein [Function unknown]; Region: COG5276 561230004304 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 561230004305 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 561230004306 putative ligand binding site [chemical binding]; other site 561230004307 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 561230004308 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 561230004309 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 561230004310 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 561230004311 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 561230004312 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 561230004313 [4Fe-4S] binding site [ion binding]; other site 561230004314 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 561230004315 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 561230004316 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 561230004317 molybdopterin cofactor binding site; other site 561230004318 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 561230004319 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 561230004320 active site 561230004321 HIGH motif; other site 561230004322 KMSKS motif; other site 561230004323 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 561230004324 tRNA binding surface [nucleotide binding]; other site 561230004325 anticodon binding site; other site 561230004326 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 561230004327 dimer interface [polypeptide binding]; other site 561230004328 putative tRNA-binding site [nucleotide binding]; other site 561230004329 antiporter inner membrane protein; Provisional; Region: PRK11670 561230004330 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 561230004331 Walker A motif; other site 561230004332 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 561230004333 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 561230004334 Sugar specificity; other site 561230004335 Pyrimidine base specificity; other site 561230004336 ATP-binding site [chemical binding]; other site 561230004337 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 561230004338 trimer interface [polypeptide binding]; other site 561230004339 active site 561230004340 putative assembly protein; Provisional; Region: PRK10833 561230004341 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 561230004342 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 561230004343 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 561230004344 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 561230004345 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 561230004346 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 561230004347 Transporter associated domain; Region: CorC_HlyC; smart01091 561230004348 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 561230004349 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 561230004350 Mg++ binding site [ion binding]; other site 561230004351 putative catalytic motif [active] 561230004352 substrate binding site [chemical binding]; other site 561230004353 polysaccharide export protein Wza; Provisional; Region: PRK15078 561230004354 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 561230004355 SLBB domain; Region: SLBB; pfam10531 561230004356 Low molecular weight phosphatase family; Region: LMWPc; cd00115 561230004357 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 561230004358 active site 561230004359 tyrosine kinase; Provisional; Region: PRK11519 561230004360 Chain length determinant protein; Region: Wzz; pfam02706 561230004361 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 561230004362 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 561230004363 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 561230004364 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 561230004365 substrate binding site; other site 561230004366 tetramer interface; other site 561230004367 WxcM-like, C-terminal; Region: FdtA; pfam05523 561230004368 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 561230004369 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 561230004370 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230004371 catalytic residue [active] 561230004372 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 561230004373 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 561230004374 trimer interface [polypeptide binding]; other site 561230004375 active site 561230004376 substrate binding site [chemical binding]; other site 561230004377 CoA binding site [chemical binding]; other site 561230004378 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 561230004379 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 561230004380 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 561230004381 inhibitor-cofactor binding pocket; inhibition site 561230004382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230004383 catalytic residue [active] 561230004384 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 561230004385 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 561230004386 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 561230004387 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 561230004388 active site 561230004389 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 561230004390 putative trimer interface [polypeptide binding]; other site 561230004391 putative CoA binding site [chemical binding]; other site 561230004392 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561230004393 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 561230004394 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561230004395 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 561230004396 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561230004397 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 561230004398 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 561230004399 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 561230004400 NADP-binding site; other site 561230004401 homotetramer interface [polypeptide binding]; other site 561230004402 substrate binding site [chemical binding]; other site 561230004403 homodimer interface [polypeptide binding]; other site 561230004404 active site 561230004405 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 561230004406 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 561230004407 NADP binding site [chemical binding]; other site 561230004408 active site 561230004409 putative substrate binding site [chemical binding]; other site 561230004410 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 561230004411 active site 561230004412 GDP-Mannose binding site [chemical binding]; other site 561230004413 dimer interface [polypeptide binding]; other site 561230004414 modified nudix motif 561230004415 metal binding site [ion binding]; metal-binding site 561230004416 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 561230004417 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 561230004418 Substrate binding site; other site 561230004419 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 561230004420 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 561230004421 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 561230004422 metal-binding site 561230004423 phosphomannomutase CpsG; Provisional; Region: PRK15414 561230004424 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 561230004425 active site 561230004426 substrate binding site [chemical binding]; other site 561230004427 metal binding site [ion binding]; metal-binding site 561230004428 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 561230004429 active site 561230004430 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 561230004431 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 561230004432 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 561230004433 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 561230004434 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 561230004435 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 561230004436 chorismate mutase; Provisional; Region: PRK08055 561230004437 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 561230004438 peptidase domain interface [polypeptide binding]; other site 561230004439 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 561230004440 active site 561230004441 catalytic triad [active] 561230004442 calcium binding site [ion binding]; other site 561230004443 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 561230004444 beta-galactosidase; Region: BGL; TIGR03356 561230004445 transcriptional antiterminator BglG; Provisional; Region: PRK09772 561230004446 CAT RNA binding domain; Region: CAT_RBD; smart01061 561230004447 PRD domain; Region: PRD; pfam00874 561230004448 PRD domain; Region: PRD; pfam00874 561230004449 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 561230004450 MASE2 domain; Region: MASE2; pfam05230 561230004451 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230004452 metal binding site [ion binding]; metal-binding site 561230004453 active site 561230004454 I-site; other site 561230004455 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561230004456 Uncharacterized conserved protein [Function unknown]; Region: COG1359 561230004457 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 561230004458 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 561230004459 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 561230004460 putative active site [active] 561230004461 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 561230004462 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 561230004463 tetrameric interface [polypeptide binding]; other site 561230004464 NAD binding site [chemical binding]; other site 561230004465 catalytic residues [active] 561230004466 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 561230004467 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561230004468 PYR/PP interface [polypeptide binding]; other site 561230004469 dimer interface [polypeptide binding]; other site 561230004470 TPP binding site [chemical binding]; other site 561230004471 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561230004472 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 561230004473 TPP-binding site; other site 561230004474 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561230004475 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561230004476 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561230004477 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 561230004478 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 561230004479 ligand binding site [chemical binding]; other site 561230004480 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561230004481 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561230004482 Walker A/P-loop; other site 561230004483 ATP binding site [chemical binding]; other site 561230004484 Q-loop/lid; other site 561230004485 ABC transporter signature motif; other site 561230004486 Walker B; other site 561230004487 D-loop; other site 561230004488 H-loop/switch region; other site 561230004489 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561230004490 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230004491 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 561230004492 TM-ABC transporter signature motif; other site 561230004493 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561230004494 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561230004495 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561230004496 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561230004497 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 561230004498 substrate binding site [chemical binding]; other site 561230004499 ATP binding site [chemical binding]; other site 561230004500 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 561230004501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 561230004502 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 561230004503 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 561230004504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230004505 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561230004506 Walker A/P-loop; other site 561230004507 ATP binding site [chemical binding]; other site 561230004508 Q-loop/lid; other site 561230004509 ABC transporter signature motif; other site 561230004510 Walker B; other site 561230004511 D-loop; other site 561230004512 H-loop/switch region; other site 561230004513 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561230004514 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 561230004515 dimer interface [polypeptide binding]; other site 561230004516 conserved gate region; other site 561230004517 putative PBP binding loops; other site 561230004518 ABC-ATPase subunit interface; other site 561230004519 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 561230004520 dimer interface [polypeptide binding]; other site 561230004521 conserved gate region; other site 561230004522 putative PBP binding loops; other site 561230004523 ABC-ATPase subunit interface; other site 561230004524 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561230004525 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 561230004526 transcriptional antiterminator BglG; Provisional; Region: PRK09772 561230004527 CAT RNA binding domain; Region: CAT_RBD; smart01061 561230004528 PRD domain; Region: PRD; pfam00874 561230004529 PRD domain; Region: PRD; pfam00874 561230004530 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 561230004531 beta-galactosidase; Region: BGL; TIGR03356 561230004532 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 561230004533 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 561230004534 active site turn [active] 561230004535 phosphorylation site [posttranslational modification] 561230004536 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561230004537 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 561230004538 HPr interaction site; other site 561230004539 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561230004540 active site 561230004541 phosphorylation site [posttranslational modification] 561230004542 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 561230004543 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 561230004544 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230004545 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230004546 metal binding site [ion binding]; metal-binding site 561230004547 active site 561230004548 I-site; other site 561230004549 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 561230004550 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 561230004551 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 561230004552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230004553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230004554 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 561230004555 putative effector binding pocket; other site 561230004556 putative dimerization interface [polypeptide binding]; other site 561230004557 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 561230004558 homotrimer interaction site [polypeptide binding]; other site 561230004559 putative active site [active] 561230004560 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 561230004561 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 561230004562 NAD(P) binding site [chemical binding]; other site 561230004563 galactoside permease; Reviewed; Region: lacY; PRK09528 561230004564 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 561230004565 putative substrate translocation pore; other site 561230004566 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 561230004567 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 561230004568 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 561230004569 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 561230004570 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 561230004571 lac repressor; Reviewed; Region: lacI; PRK09526 561230004572 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230004573 DNA binding site [nucleotide binding] 561230004574 domain linker motif; other site 561230004575 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 561230004576 ligand binding site [chemical binding]; other site 561230004577 dimerization interface (open form) [polypeptide binding]; other site 561230004578 dimerization interface (closed form) [polypeptide binding]; other site 561230004579 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 561230004580 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230004581 Walker A/P-loop; other site 561230004582 ATP binding site [chemical binding]; other site 561230004583 Q-loop/lid; other site 561230004584 ABC transporter signature motif; other site 561230004585 Walker B; other site 561230004586 D-loop; other site 561230004587 H-loop/switch region; other site 561230004588 TOBE domain; Region: TOBE_2; pfam08402 561230004589 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561230004590 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 561230004591 dimer interface [polypeptide binding]; other site 561230004592 conserved gate region; other site 561230004593 putative PBP binding loops; other site 561230004594 ABC-ATPase subunit interface; other site 561230004595 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 561230004596 dimer interface [polypeptide binding]; other site 561230004597 conserved gate region; other site 561230004598 putative PBP binding loops; other site 561230004599 ABC-ATPase subunit interface; other site 561230004600 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561230004601 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561230004602 regulatory protein UhpC; Provisional; Region: PRK11663 561230004603 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 561230004604 putative substrate translocation pore; other site 561230004605 MASE1; Region: MASE1; pfam05231 561230004606 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 561230004607 Histidine kinase; Region: HisKA_3; pfam07730 561230004608 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 561230004609 ATP binding site [chemical binding]; other site 561230004610 Mg2+ binding site [ion binding]; other site 561230004611 G-X-G motif; other site 561230004612 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 561230004613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230004614 active site 561230004615 phosphorylation site [posttranslational modification] 561230004616 intermolecular recognition site; other site 561230004617 dimerization interface [polypeptide binding]; other site 561230004618 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 561230004619 DNA binding residues [nucleotide binding] 561230004620 dimerization interface [polypeptide binding]; other site 561230004621 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 561230004622 lipoprotein, YaeC family; Region: TIGR00363 561230004623 Pectate lyase; Region: Pec_lyase_C; cl01593 561230004624 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 561230004625 Helix-turn-helix domain; Region: HTH_18; pfam12833 561230004626 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230004627 macrolide transporter subunit MacA; Provisional; Region: PRK11578 561230004628 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230004629 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230004630 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 561230004631 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561230004632 Walker A/P-loop; other site 561230004633 ATP binding site [chemical binding]; other site 561230004634 Q-loop/lid; other site 561230004635 ABC transporter signature motif; other site 561230004636 Walker B; other site 561230004637 D-loop; other site 561230004638 H-loop/switch region; other site 561230004639 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561230004640 FtsX-like permease family; Region: FtsX; pfam02687 561230004641 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 561230004642 aspartate racemase; Region: asp_race; TIGR00035 561230004643 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 561230004644 cell density-dependent motility repressor; Provisional; Region: PRK10082 561230004645 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230004646 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 561230004647 dimerization interface [polypeptide binding]; other site 561230004648 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561230004649 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 561230004650 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230004651 DNA-binding site [nucleotide binding]; DNA binding site 561230004652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230004653 DNA-binding site [nucleotide binding]; DNA binding site 561230004654 Transcriptional regulators [Transcription]; Region: GntR; COG1802 561230004655 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 561230004656 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 561230004657 Citrate transporter; Region: CitMHS; pfam03600 561230004658 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 561230004659 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 561230004660 [4Fe-4S] binding site [ion binding]; other site 561230004661 molybdopterin cofactor binding site; other site 561230004662 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 561230004663 molybdopterin cofactor binding site; other site 561230004664 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 561230004665 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230004666 dimer interface [polypeptide binding]; other site 561230004667 putative CheW interface [polypeptide binding]; other site 561230004668 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 561230004669 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 561230004670 Predicted membrane protein [Function unknown]; Region: COG4393 561230004671 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 561230004672 Uncharacterized conserved protein [Function unknown]; Region: COG3350 561230004673 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561230004674 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 561230004675 FtsX-like permease family; Region: FtsX; pfam02687 561230004676 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 561230004677 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561230004678 FtsX-like permease family; Region: FtsX; pfam02687 561230004679 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561230004680 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561230004681 Walker A/P-loop; other site 561230004682 ATP binding site [chemical binding]; other site 561230004683 Q-loop/lid; other site 561230004684 ABC transporter signature motif; other site 561230004685 Walker B; other site 561230004686 D-loop; other site 561230004687 H-loop/switch region; other site 561230004688 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 561230004689 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 561230004690 catalytic residues [active] 561230004691 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561230004692 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561230004693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230004694 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230004695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230004696 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 561230004697 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 561230004698 substrate binding site [chemical binding]; other site 561230004699 dimerization interface [polypeptide binding]; other site 561230004700 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 561230004701 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561230004702 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 561230004703 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 561230004704 putative active site [active] 561230004705 metal binding site [ion binding]; metal-binding site 561230004706 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561230004707 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 561230004708 putative PBP binding loops; other site 561230004709 dimer interface [polypeptide binding]; other site 561230004710 ABC-ATPase subunit interface; other site 561230004711 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561230004712 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561230004713 Walker A/P-loop; other site 561230004714 ATP binding site [chemical binding]; other site 561230004715 Q-loop/lid; other site 561230004716 ABC transporter signature motif; other site 561230004717 Walker B; other site 561230004718 D-loop; other site 561230004719 H-loop/switch region; other site 561230004720 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561230004721 NMT1-like family; Region: NMT1_2; pfam13379 561230004722 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 561230004723 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 561230004724 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 561230004725 substrate binding pocket [chemical binding]; other site 561230004726 membrane-bound complex binding site; other site 561230004727 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561230004728 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 561230004729 dimer interface [polypeptide binding]; other site 561230004730 conserved gate region; other site 561230004731 putative PBP binding loops; other site 561230004732 ABC-ATPase subunit interface; other site 561230004733 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561230004734 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561230004735 Walker A/P-loop; other site 561230004736 ATP binding site [chemical binding]; other site 561230004737 Q-loop/lid; other site 561230004738 ABC transporter signature motif; other site 561230004739 Walker B; other site 561230004740 D-loop; other site 561230004741 H-loop/switch region; other site 561230004742 D-cysteine desulfhydrase; Validated; Region: PRK03910 561230004743 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 561230004744 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230004745 catalytic residue [active] 561230004746 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 561230004747 aspartate racemase; Region: asp_race; TIGR00035 561230004748 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 561230004749 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 561230004750 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 561230004751 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 561230004752 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230004753 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230004754 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 561230004755 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 561230004756 Walker A/P-loop; other site 561230004757 ATP binding site [chemical binding]; other site 561230004758 Q-loop/lid; other site 561230004759 ABC transporter signature motif; other site 561230004760 Walker B; other site 561230004761 D-loop; other site 561230004762 H-loop/switch region; other site 561230004763 Heme-binding protein A (HasA); Region: HasA; pfam06438 561230004764 Secretin and TonB N terminus short domain; Region: STN; smart00965 561230004765 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 561230004766 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 561230004767 N-terminal plug; other site 561230004768 ligand-binding site [chemical binding]; other site 561230004769 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 561230004770 FecR protein; Region: FecR; pfam04773 561230004771 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 561230004772 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230004773 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 561230004774 DNA binding residues [nucleotide binding] 561230004775 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 561230004776 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 561230004777 tetrameric interface [polypeptide binding]; other site 561230004778 NAD binding site [chemical binding]; other site 561230004779 catalytic residues [active] 561230004780 substrate binding site [chemical binding]; other site 561230004781 putrescine aminotransferase; Region: putres_am_tran; TIGR03372 561230004782 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 561230004783 inhibitor-cofactor binding pocket; inhibition site 561230004784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230004785 catalytic residue [active] 561230004786 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230004787 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561230004788 HAMP domain; Region: HAMP; pfam00672 561230004789 dimerization interface [polypeptide binding]; other site 561230004790 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230004791 dimer interface [polypeptide binding]; other site 561230004792 putative CheW interface [polypeptide binding]; other site 561230004793 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 561230004794 Methyltransferase domain; Region: Methyltransf_23; pfam13489 561230004795 S-adenosylmethionine binding site [chemical binding]; other site 561230004796 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230004797 proline/glycine betaine transporter; Provisional; Region: PRK10642 561230004798 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 561230004799 putative substrate translocation pore; other site 561230004800 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 561230004801 AMP nucleosidase; Provisional; Region: PRK08292 561230004802 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 561230004803 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 561230004804 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561230004805 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 561230004806 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 561230004807 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 561230004808 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 561230004809 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230004810 putative substrate translocation pore; other site 561230004811 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561230004812 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230004813 Walker A/P-loop; other site 561230004814 ATP binding site [chemical binding]; other site 561230004815 Q-loop/lid; other site 561230004816 ABC transporter signature motif; other site 561230004817 Walker B; other site 561230004818 D-loop; other site 561230004819 H-loop/switch region; other site 561230004820 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230004821 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561230004822 Walker A/P-loop; other site 561230004823 ATP binding site [chemical binding]; other site 561230004824 Q-loop/lid; other site 561230004825 ABC transporter signature motif; other site 561230004826 Walker B; other site 561230004827 D-loop; other site 561230004828 H-loop/switch region; other site 561230004829 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230004830 hypothetical protein; Provisional; Region: PRK09956 561230004831 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 561230004832 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 561230004833 catalytic residues [active] 561230004834 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561230004835 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561230004836 Walker A/P-loop; other site 561230004837 ATP binding site [chemical binding]; other site 561230004838 Q-loop/lid; other site 561230004839 ABC transporter signature motif; other site 561230004840 Walker B; other site 561230004841 D-loop; other site 561230004842 H-loop/switch region; other site 561230004843 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 561230004844 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561230004845 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 561230004846 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561230004847 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561230004848 NMT1-like family; Region: NMT1_2; pfam13379 561230004849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230004850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230004851 LysR substrate binding domain; Region: LysR_substrate; pfam03466 561230004852 dimerization interface [polypeptide binding]; other site 561230004853 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 561230004854 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561230004855 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 561230004856 N-terminal plug; other site 561230004857 ligand-binding site [chemical binding]; other site 561230004858 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 561230004859 muropeptide transporter; Validated; Region: ampG; cl17669 561230004860 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230004861 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230004862 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 561230004863 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561230004864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230004865 Walker A/P-loop; other site 561230004866 ATP binding site [chemical binding]; other site 561230004867 Q-loop/lid; other site 561230004868 ABC transporter signature motif; other site 561230004869 Walker B; other site 561230004870 D-loop; other site 561230004871 H-loop/switch region; other site 561230004872 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 561230004873 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561230004874 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230004875 Walker A/P-loop; other site 561230004876 ATP binding site [chemical binding]; other site 561230004877 Q-loop/lid; other site 561230004878 ABC transporter signature motif; other site 561230004879 Walker B; other site 561230004880 D-loop; other site 561230004881 H-loop/switch region; other site 561230004882 transcriptional regulator TraR; Provisional; Region: PRK13870 561230004883 Autoinducer binding domain; Region: Autoind_bind; pfam03472 561230004884 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 561230004885 DNA binding residues [nucleotide binding] 561230004886 dimerization interface [polypeptide binding]; other site 561230004887 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561230004888 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230004889 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 561230004890 Protein of unknown function (DUF330); Region: DUF330; pfam03886 561230004891 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 561230004892 mce related protein; Region: MCE; pfam02470 561230004893 mce related protein; Region: MCE; pfam02470 561230004894 mce related protein; Region: MCE; pfam02470 561230004895 Paraquat-inducible protein A; Region: PqiA; pfam04403 561230004896 Paraquat-inducible protein A; Region: PqiA; pfam04403 561230004897 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 561230004898 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 561230004899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230004900 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 561230004901 active site 561230004902 phosphorylation site [posttranslational modification] 561230004903 intermolecular recognition site; other site 561230004904 dimerization interface [polypeptide binding]; other site 561230004905 outer membrane receptor FepA; Provisional; Region: PRK13528 561230004906 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 561230004907 N-terminal plug; other site 561230004908 ligand-binding site [chemical binding]; other site 561230004909 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561230004910 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230004911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 561230004912 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230004913 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 561230004914 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 561230004915 putative substrate translocation pore; other site 561230004916 putative S-transferase; Provisional; Region: PRK11752 561230004917 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 561230004918 C-terminal domain interface [polypeptide binding]; other site 561230004919 GSH binding site (G-site) [chemical binding]; other site 561230004920 dimer interface [polypeptide binding]; other site 561230004921 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 561230004922 dimer interface [polypeptide binding]; other site 561230004923 N-terminal domain interface [polypeptide binding]; other site 561230004924 active site 561230004925 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 561230004926 NADH(P)-binding; Region: NAD_binding_10; pfam13460 561230004927 NAD binding site [chemical binding]; other site 561230004928 substrate binding site [chemical binding]; other site 561230004929 putative active site [active] 561230004930 Predicted transcriptional regulators [Transcription]; Region: COG1733 561230004931 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 561230004932 dimerization interface [polypeptide binding]; other site 561230004933 putative DNA binding site [nucleotide binding]; other site 561230004934 putative Zn2+ binding site [ion binding]; other site 561230004935 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 561230004936 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 561230004937 non-specific DNA binding site [nucleotide binding]; other site 561230004938 salt bridge; other site 561230004939 sequence-specific DNA binding site [nucleotide binding]; other site 561230004940 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 561230004941 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 561230004942 putative substrate translocation pore; other site 561230004943 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 561230004944 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230004945 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 561230004946 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 561230004947 DNA binding residues [nucleotide binding] 561230004948 putative dimer interface [polypeptide binding]; other site 561230004949 putative metal binding residues [ion binding]; other site 561230004950 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 561230004951 beta-galactosidase; Region: BGL; TIGR03356 561230004952 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 561230004953 DNA-binding site [nucleotide binding]; DNA binding site 561230004954 RNA-binding motif; other site 561230004955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 561230004956 methionine synthase; Provisional; Region: PRK01207 561230004957 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 561230004958 substrate binding site [chemical binding]; other site 561230004959 THF binding site; other site 561230004960 zinc-binding site [ion binding]; other site 561230004961 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 561230004962 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 561230004963 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 561230004964 putative active site pocket [active] 561230004965 dimerization interface [polypeptide binding]; other site 561230004966 putative catalytic residue [active] 561230004967 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 561230004968 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 561230004969 active site 561230004970 HIGH motif; other site 561230004971 dimer interface [polypeptide binding]; other site 561230004972 KMSKS motif; other site 561230004973 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 561230004974 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 561230004975 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 561230004976 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230004977 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230004978 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 561230004979 dimerization interface [polypeptide binding]; other site 561230004980 LysE type translocator; Region: LysE; cl00565 561230004981 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 561230004982 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 561230004983 NADP binding site [chemical binding]; other site 561230004984 dimer interface [polypeptide binding]; other site 561230004985 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 561230004986 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 561230004987 tetramer interface [polypeptide binding]; other site 561230004988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230004989 catalytic residue [active] 561230004990 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 561230004991 dimerization interface [polypeptide binding]; other site 561230004992 putative DNA binding site [nucleotide binding]; other site 561230004993 putative Zn2+ binding site [ion binding]; other site 561230004994 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561230004995 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 561230004996 FMN binding site [chemical binding]; other site 561230004997 active site 561230004998 substrate binding site [chemical binding]; other site 561230004999 catalytic residue [active] 561230005000 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 561230005001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 561230005002 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 561230005003 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 561230005004 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 561230005005 transmembrane helices; other site 561230005006 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 561230005007 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 561230005008 tetramer interface [polypeptide binding]; other site 561230005009 active site 561230005010 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 561230005011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230005012 DNA-binding site [nucleotide binding]; DNA binding site 561230005013 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 561230005014 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230005015 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230005016 metal binding site [ion binding]; metal-binding site 561230005017 active site 561230005018 I-site; other site 561230005019 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 561230005020 putative lipid kinase; Reviewed; Region: PRK13057 561230005021 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 561230005022 dimer interface [polypeptide binding]; other site 561230005023 FMN binding site [chemical binding]; other site 561230005024 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 561230005025 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 561230005026 ATP binding site [chemical binding]; other site 561230005027 substrate interface [chemical binding]; other site 561230005028 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 561230005029 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 561230005030 dimer interface [polypeptide binding]; other site 561230005031 putative functional site; other site 561230005032 putative MPT binding site; other site 561230005033 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 561230005034 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230005035 Walker A/P-loop; other site 561230005036 ATP binding site [chemical binding]; other site 561230005037 Q-loop/lid; other site 561230005038 ABC transporter signature motif; other site 561230005039 Walker B; other site 561230005040 D-loop; other site 561230005041 H-loop/switch region; other site 561230005042 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 561230005043 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230005044 Walker A/P-loop; other site 561230005045 ATP binding site [chemical binding]; other site 561230005046 Q-loop/lid; other site 561230005047 ABC transporter signature motif; other site 561230005048 Walker B; other site 561230005049 D-loop; other site 561230005050 H-loop/switch region; other site 561230005051 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230005052 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 561230005053 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 561230005054 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 561230005055 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 561230005056 dimer interface [polypeptide binding]; other site 561230005057 conserved gate region; other site 561230005058 putative PBP binding loops; other site 561230005059 ABC-ATPase subunit interface; other site 561230005060 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 561230005061 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561230005062 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 561230005063 dimer interface [polypeptide binding]; other site 561230005064 conserved gate region; other site 561230005065 putative PBP binding loops; other site 561230005066 ABC-ATPase subunit interface; other site 561230005067 malate dehydrogenase; Provisional; Region: PRK13529 561230005068 Malic enzyme, N-terminal domain; Region: malic; pfam00390 561230005069 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 561230005070 NAD(P) binding site [chemical binding]; other site 561230005071 cytidine deaminase; Provisional; Region: PRK09027 561230005072 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 561230005073 active site 561230005074 catalytic motif [active] 561230005075 Zn binding site [ion binding]; other site 561230005076 Sm and related proteins; Region: Sm_like; cl00259 561230005077 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 561230005078 active site 561230005079 catalytic motif [active] 561230005080 Zn binding site [ion binding]; other site 561230005081 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 561230005082 hypothetical protein; Provisional; Region: PRK10711 561230005083 hypothetical protein; Provisional; Region: PRK01821 561230005084 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230005085 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 561230005086 putative substrate translocation pore; other site 561230005087 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 561230005088 Glycosyl hydrolase family 12; Region: Glyco_hydro_12; cl03302 561230005089 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 561230005090 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 561230005091 inhibitor-cofactor binding pocket; inhibition site 561230005092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230005093 catalytic residue [active] 561230005094 biotin synthase; Provisional; Region: PRK15108 561230005095 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 561230005096 FeS/SAM binding site; other site 561230005097 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 561230005098 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 561230005099 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 561230005100 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230005101 catalytic residue [active] 561230005102 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 561230005103 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 561230005104 S-adenosylmethionine binding site [chemical binding]; other site 561230005105 AAA domain; Region: AAA_26; pfam13500 561230005106 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 561230005107 ADP binding site [chemical binding]; other site 561230005108 excinuclease ABC subunit B; Provisional; Region: PRK05298 561230005109 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 561230005110 ATP binding site [chemical binding]; other site 561230005111 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 561230005112 nucleotide binding region [chemical binding]; other site 561230005113 ATP-binding site [chemical binding]; other site 561230005114 Ultra-violet resistance protein B; Region: UvrB; pfam12344 561230005115 UvrB/uvrC motif; Region: UVR; pfam02151 561230005116 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 561230005117 active site 561230005118 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 561230005119 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 561230005120 phosphate binding site [ion binding]; other site 561230005121 putative substrate binding pocket [chemical binding]; other site 561230005122 dimer interface [polypeptide binding]; other site 561230005123 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 561230005124 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 561230005125 FeS/SAM binding site; other site 561230005126 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 561230005127 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 561230005128 MPT binding site; other site 561230005129 trimer interface [polypeptide binding]; other site 561230005130 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 561230005131 trimer interface [polypeptide binding]; other site 561230005132 dimer interface [polypeptide binding]; other site 561230005133 putative active site [active] 561230005134 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 561230005135 MoaE interaction surface [polypeptide binding]; other site 561230005136 MoeB interaction surface [polypeptide binding]; other site 561230005137 thiocarboxylated glycine; other site 561230005138 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 561230005139 MoaE homodimer interface [polypeptide binding]; other site 561230005140 MoaD interaction [polypeptide binding]; other site 561230005141 active site residues [active] 561230005142 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 561230005143 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 561230005144 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 561230005145 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 561230005146 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 561230005147 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 561230005148 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 561230005149 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 561230005150 Walker A/P-loop; other site 561230005151 ATP binding site [chemical binding]; other site 561230005152 Q-loop/lid; other site 561230005153 ABC transporter signature motif; other site 561230005154 Walker B; other site 561230005155 D-loop; other site 561230005156 H-loop/switch region; other site 561230005157 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 561230005158 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 561230005159 Walker A/P-loop; other site 561230005160 ATP binding site [chemical binding]; other site 561230005161 Q-loop/lid; other site 561230005162 ABC transporter signature motif; other site 561230005163 Walker B; other site 561230005164 D-loop; other site 561230005165 H-loop/switch region; other site 561230005166 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 561230005167 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230005168 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230005169 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 561230005170 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 561230005171 N-terminal plug; other site 561230005172 ligand-binding site [chemical binding]; other site 561230005173 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 561230005174 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 561230005175 siderophore binding site; other site 561230005176 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561230005177 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 561230005178 ABC-ATPase subunit interface; other site 561230005179 dimer interface [polypeptide binding]; other site 561230005180 putative PBP binding regions; other site 561230005181 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 561230005182 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 561230005183 ABC-ATPase subunit interface; other site 561230005184 dimer interface [polypeptide binding]; other site 561230005185 putative PBP binding regions; other site 561230005186 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561230005187 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561230005188 Walker A/P-loop; other site 561230005189 ATP binding site [chemical binding]; other site 561230005190 Q-loop/lid; other site 561230005191 ABC transporter signature motif; other site 561230005192 Walker B; other site 561230005193 D-loop; other site 561230005194 H-loop/switch region; other site 561230005195 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 561230005196 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 561230005197 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 561230005198 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 561230005199 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 561230005200 ATP binding site [chemical binding]; other site 561230005201 Mg++ binding site [ion binding]; other site 561230005202 motif III; other site 561230005203 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 561230005204 nucleotide binding region [chemical binding]; other site 561230005205 ATP-binding site [chemical binding]; other site 561230005206 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 561230005207 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 561230005208 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 561230005209 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 561230005210 metal binding site [ion binding]; metal-binding site 561230005211 dimer interface [polypeptide binding]; other site 561230005212 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561230005213 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 561230005214 peptide binding site [polypeptide binding]; other site 561230005215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 561230005216 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 561230005217 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 561230005218 FMN binding site [chemical binding]; other site 561230005219 active site 561230005220 catalytic residues [active] 561230005221 substrate binding site [chemical binding]; other site 561230005222 S-methylmethionine transporter; Provisional; Region: PRK11387 561230005223 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 561230005224 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 561230005225 aminopeptidase B; Provisional; Region: PRK05015 561230005226 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 561230005227 putative active site [active] 561230005228 putative metal binding residues [ion binding]; other site 561230005229 signature motif; other site 561230005230 putative triphosphate binding site [ion binding]; other site 561230005231 dimer interface [polypeptide binding]; other site 561230005232 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 561230005233 FMN-binding domain; Region: FMN_bind; cl01081 561230005234 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 561230005235 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 561230005236 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 561230005237 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561230005238 putative C-terminal domain interface [polypeptide binding]; other site 561230005239 putative GSH binding site (G-site) [chemical binding]; other site 561230005240 putative dimer interface [polypeptide binding]; other site 561230005241 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 561230005242 putative substrate binding pocket (H-site) [chemical binding]; other site 561230005243 putative N-terminal domain interface [polypeptide binding]; other site 561230005244 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561230005245 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 561230005246 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561230005247 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 561230005248 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 561230005249 putative PBP binding loops; other site 561230005250 dimer interface [polypeptide binding]; other site 561230005251 ABC-ATPase subunit interface; other site 561230005252 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 561230005253 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561230005254 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230005255 Walker A/P-loop; other site 561230005256 ATP binding site [chemical binding]; other site 561230005257 Q-loop/lid; other site 561230005258 ABC transporter signature motif; other site 561230005259 Walker B; other site 561230005260 D-loop; other site 561230005261 H-loop/switch region; other site 561230005262 TOBE domain; Region: TOBE_2; pfam08402 561230005263 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 561230005264 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561230005265 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 561230005266 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 561230005267 inhibitor-cofactor binding pocket; inhibition site 561230005268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230005269 catalytic residue [active] 561230005270 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 561230005271 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 561230005272 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 561230005273 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 561230005274 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 561230005275 active site 561230005276 metal binding site [ion binding]; metal-binding site 561230005277 nudix motif; other site 561230005278 LysE type translocator; Region: LysE; cl00565 561230005279 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561230005280 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 561230005281 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 561230005282 DEAD_2; Region: DEAD_2; pfam06733 561230005283 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 561230005284 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 561230005285 active site 561230005286 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 561230005287 Protease inhibitor Inh; Region: Inh; pfam02974 561230005288 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 561230005289 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 561230005290 Walker A/P-loop; other site 561230005291 ATP binding site [chemical binding]; other site 561230005292 Q-loop/lid; other site 561230005293 ABC transporter signature motif; other site 561230005294 Walker B; other site 561230005295 D-loop; other site 561230005296 H-loop/switch region; other site 561230005297 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 561230005298 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230005299 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230005300 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 561230005301 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 561230005302 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 561230005303 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561230005304 catalytic residue [active] 561230005305 Gp37 protein; Region: Gp37; pfam09646 561230005306 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 561230005307 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 561230005308 Phage tail tube protein FII; Region: Phage_tube; cl01390 561230005309 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 561230005310 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 561230005311 catalytic loop [active] 561230005312 iron binding site [ion binding]; other site 561230005313 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 561230005314 chromosome segregation protein; Provisional; Region: PRK03918 561230005315 Phage-related tail protein [Function unknown]; Region: COG5283 561230005316 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 561230005317 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 561230005318 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 561230005319 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 561230005320 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 561230005321 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 561230005322 Baseplate J-like protein; Region: Baseplate_J; cl01294 561230005323 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 561230005324 Phage Tail Collar Domain; Region: Collar; pfam07484 561230005325 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 561230005326 glycosyl transferase family protein; Provisional; Region: PRK08136 561230005327 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 561230005328 Peptidase M3-like family, a zincin metallopeptidase, includes M3 and M32 families; Region: M3_like; cd06258 561230005329 active site 561230005330 Zn binding site [ion binding]; other site 561230005331 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 561230005332 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561230005333 Walker A/P-loop; other site 561230005334 ATP binding site [chemical binding]; other site 561230005335 Q-loop/lid; other site 561230005336 ABC transporter signature motif; other site 561230005337 Walker B; other site 561230005338 D-loop; other site 561230005339 H-loop/switch region; other site 561230005340 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230005341 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 561230005342 dimer interface [polypeptide binding]; other site 561230005343 conserved gate region; other site 561230005344 putative PBP binding loops; other site 561230005345 ABC-ATPase subunit interface; other site 561230005346 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 561230005347 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 561230005348 substrate binding pocket [chemical binding]; other site 561230005349 membrane-bound complex binding site; other site 561230005350 hinge residues; other site 561230005351 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 561230005352 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 561230005353 dimerization interface [polypeptide binding]; other site 561230005354 DPS ferroxidase diiron center [ion binding]; other site 561230005355 ion pore; other site 561230005356 topology modulation protein; Reviewed; Region: PRK08118 561230005357 AAA domain; Region: AAA_17; pfam13207 561230005358 threonine and homoserine efflux system; Provisional; Region: PRK10532 561230005359 EamA-like transporter family; Region: EamA; pfam00892 561230005360 outer membrane protein X; Provisional; Region: ompX; PRK09408 561230005361 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 561230005362 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 561230005363 putative substrate translocation pore; other site 561230005364 MATE family multidrug exporter; Provisional; Region: PRK10189 561230005365 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 561230005366 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 561230005367 active site residue [active] 561230005368 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 561230005369 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 561230005370 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 561230005371 active site 561230005372 catalytic residues [active] 561230005373 DNA binding site [nucleotide binding] 561230005374 Int/Topo IB signature motif; other site 561230005375 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 561230005376 active site 561230005377 Int/Topo IB signature motif; other site 561230005378 catalytic residues [active] 561230005379 DNA binding site [nucleotide binding] 561230005380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 561230005381 META domain; Region: META; cl01245 561230005382 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 561230005383 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 561230005384 His-Xaa-Ser system protein HsxD; Region: chp_LLNDYxLRE; TIGR03976 561230005385 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 561230005386 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 561230005387 FeS/SAM binding site; other site 561230005388 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 561230005389 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 561230005390 FeS/SAM binding site; other site 561230005391 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 561230005392 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 561230005393 HicB family; Region: HicB; pfam05534 561230005394 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 561230005395 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]; Region: COG4916 561230005396 TIR domain; Region: TIR_2; pfam13676 561230005397 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 561230005398 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561230005399 Restriction endonuclease; Region: Mrr_cat; pfam04471 561230005400 integrase; Provisional; Region: PRK09692 561230005401 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 561230005402 active site 561230005403 Int/Topo IB signature motif; other site 561230005404 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 561230005405 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 561230005406 Sulfatase; Region: Sulfatase; cl17466 561230005407 hypothetical protein; Provisional; Region: PRK13689 561230005408 Nucleoid-associated protein [General function prediction only]; Region: COG3081 561230005409 nucleoid-associated protein NdpA; Validated; Region: PRK00378 561230005410 Predicted membrane protein [Function unknown]; Region: COG3503 561230005411 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 561230005412 5S rRNA interface [nucleotide binding]; other site 561230005413 CTC domain interface [polypeptide binding]; other site 561230005414 L16 interface [polypeptide binding]; other site 561230005415 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 561230005416 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 561230005417 ATP binding site [chemical binding]; other site 561230005418 putative Mg++ binding site [ion binding]; other site 561230005419 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 561230005420 nucleotide binding region [chemical binding]; other site 561230005421 ATP-binding site [chemical binding]; other site 561230005422 Double zinc ribbon; Region: DZR; pfam12773 561230005423 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 561230005424 probable metal-binding protein; Region: matur_matur; TIGR03853 561230005425 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 561230005426 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 561230005427 RNA binding surface [nucleotide binding]; other site 561230005428 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 561230005429 active site 561230005430 uracil binding [chemical binding]; other site 561230005431 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 561230005432 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 561230005433 putative substrate translocation pore; other site 561230005434 hypothetical protein; Provisional; Region: PRK11835 561230005435 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 561230005436 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230005437 Walker A/P-loop; other site 561230005438 ATP binding site [chemical binding]; other site 561230005439 Q-loop/lid; other site 561230005440 ABC transporter signature motif; other site 561230005441 Walker B; other site 561230005442 D-loop; other site 561230005443 H-loop/switch region; other site 561230005444 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230005445 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230005446 Walker A/P-loop; other site 561230005447 ATP binding site [chemical binding]; other site 561230005448 Q-loop/lid; other site 561230005449 ABC transporter signature motif; other site 561230005450 Walker B; other site 561230005451 D-loop; other site 561230005452 H-loop/switch region; other site 561230005453 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 561230005454 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561230005455 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 561230005456 dimer interface [polypeptide binding]; other site 561230005457 conserved gate region; other site 561230005458 putative PBP binding loops; other site 561230005459 ABC-ATPase subunit interface; other site 561230005460 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 561230005461 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 561230005462 dimer interface [polypeptide binding]; other site 561230005463 conserved gate region; other site 561230005464 putative PBP binding loops; other site 561230005465 ABC-ATPase subunit interface; other site 561230005466 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 561230005467 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 561230005468 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 561230005469 NlpC/P60 family; Region: NLPC_P60; pfam00877 561230005470 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 561230005471 active site 561230005472 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 561230005473 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 561230005474 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 561230005475 elongation factor P; Provisional; Region: PRK04542 561230005476 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 561230005477 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 561230005478 RNA binding site [nucleotide binding]; other site 561230005479 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 561230005480 RNA binding site [nucleotide binding]; other site 561230005481 sugar efflux transporter B; Provisional; Region: PRK15011 561230005482 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 561230005483 putative substrate translocation pore; other site 561230005484 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 561230005485 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 561230005486 active site 561230005487 phosphorylation site [posttranslational modification] 561230005488 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 561230005489 dimerization domain swap beta strand [polypeptide binding]; other site 561230005490 regulatory protein interface [polypeptide binding]; other site 561230005491 active site 561230005492 regulatory phosphorylation site [posttranslational modification]; other site 561230005493 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 561230005494 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 561230005495 putative substrate binding site [chemical binding]; other site 561230005496 putative ATP binding site [chemical binding]; other site 561230005497 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 561230005498 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 561230005499 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 561230005500 active site 561230005501 P-loop; other site 561230005502 phosphorylation site [posttranslational modification] 561230005503 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 561230005504 endonuclease IV; Provisional; Region: PRK01060 561230005505 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 561230005506 AP (apurinic/apyrimidinic) site pocket; other site 561230005507 DNA interaction; other site 561230005508 Metal-binding active site; metal-binding site 561230005509 Predicted membrane protein [Function unknown]; Region: COG2855 561230005510 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 561230005511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230005512 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 561230005513 putative dimerization interface [polypeptide binding]; other site 561230005514 lysine transporter; Provisional; Region: PRK10836 561230005515 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 561230005516 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 561230005517 N-terminal plug; other site 561230005518 ligand-binding site [chemical binding]; other site 561230005519 glycerate dehydrogenase; Provisional; Region: PRK06932 561230005520 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 561230005521 putative ligand binding site [chemical binding]; other site 561230005522 putative NAD binding site [chemical binding]; other site 561230005523 catalytic site [active] 561230005524 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230005525 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 561230005526 TM-ABC transporter signature motif; other site 561230005527 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561230005528 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561230005529 Walker A/P-loop; other site 561230005530 ATP binding site [chemical binding]; other site 561230005531 Q-loop/lid; other site 561230005532 ABC transporter signature motif; other site 561230005533 Walker B; other site 561230005534 D-loop; other site 561230005535 H-loop/switch region; other site 561230005536 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561230005537 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 561230005538 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 561230005539 putative active site [active] 561230005540 metal binding site [ion binding]; metal-binding site 561230005541 KTSC domain; Region: KTSC; pfam13619 561230005542 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561230005543 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 561230005544 putative C-terminal domain interface [polypeptide binding]; other site 561230005545 putative GSH binding site (G-site) [chemical binding]; other site 561230005546 putative dimer interface [polypeptide binding]; other site 561230005547 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 561230005548 putative N-terminal domain interface [polypeptide binding]; other site 561230005549 putative dimer interface [polypeptide binding]; other site 561230005550 putative substrate binding pocket (H-site) [chemical binding]; other site 561230005551 S-formylglutathione hydrolase; Region: PLN02442 561230005552 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 561230005553 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 561230005554 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 561230005555 substrate binding site [chemical binding]; other site 561230005556 catalytic Zn binding site [ion binding]; other site 561230005557 NAD binding site [chemical binding]; other site 561230005558 structural Zn binding site [ion binding]; other site 561230005559 dimer interface [polypeptide binding]; other site 561230005560 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230005561 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230005562 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 561230005563 putative dimerization interface [polypeptide binding]; other site 561230005564 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230005565 dimer interface [polypeptide binding]; other site 561230005566 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561230005567 putative CheW interface [polypeptide binding]; other site 561230005568 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 561230005569 active site 561230005570 Predicted membrane protein [Function unknown]; Region: COG2311 561230005571 hypothetical protein; Provisional; Region: PRK10835 561230005572 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 561230005573 putative active site [active] 561230005574 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 561230005575 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 561230005576 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 561230005577 FeS/SAM binding site; other site 561230005578 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 561230005579 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561230005580 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230005581 Walker A/P-loop; other site 561230005582 ATP binding site [chemical binding]; other site 561230005583 Q-loop/lid; other site 561230005584 ABC transporter signature motif; other site 561230005585 Walker B; other site 561230005586 D-loop; other site 561230005587 H-loop/switch region; other site 561230005588 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 561230005589 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 561230005590 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 561230005591 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 561230005592 active site 561230005593 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 561230005594 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 561230005595 active site 561230005596 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 561230005597 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 561230005598 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561230005599 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 561230005600 putative C-terminal domain interface [polypeptide binding]; other site 561230005601 putative GSH binding site (G-site) [chemical binding]; other site 561230005602 putative dimer interface [polypeptide binding]; other site 561230005603 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 561230005604 putative N-terminal domain interface [polypeptide binding]; other site 561230005605 putative dimer interface [polypeptide binding]; other site 561230005606 putative substrate binding pocket (H-site) [chemical binding]; other site 561230005607 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 561230005608 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 561230005609 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 561230005610 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 561230005611 Walker A/P-loop; other site 561230005612 ATP binding site [chemical binding]; other site 561230005613 Q-loop/lid; other site 561230005614 ABC transporter signature motif; other site 561230005615 Walker B; other site 561230005616 D-loop; other site 561230005617 H-loop/switch region; other site 561230005618 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230005619 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 561230005620 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 561230005621 ABC-ATPase subunit interface; other site 561230005622 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 561230005623 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 561230005624 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 561230005625 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 561230005626 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 561230005627 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561230005628 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 561230005629 intersubunit interface [polypeptide binding]; other site 561230005630 active site 561230005631 catalytic residue [active] 561230005632 putative transporter; Provisional; Region: PRK04972 561230005633 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 561230005634 TrkA-C domain; Region: TrkA_C; pfam02080 561230005635 TrkA-C domain; Region: TrkA_C; pfam02080 561230005636 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 561230005637 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 561230005638 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 561230005639 GSH binding site [chemical binding]; other site 561230005640 catalytic residues [active] 561230005641 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 561230005642 dimer interface [polypeptide binding]; other site 561230005643 FMN binding site [chemical binding]; other site 561230005644 NADPH bind site [chemical binding]; other site 561230005645 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 561230005646 RimK-like ATP-grasp domain; Region: RimK; pfam08443 561230005647 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 561230005648 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 561230005649 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561230005650 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 561230005651 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 561230005652 Walker A/P-loop; other site 561230005653 ATP binding site [chemical binding]; other site 561230005654 Q-loop/lid; other site 561230005655 ABC transporter signature motif; other site 561230005656 Walker B; other site 561230005657 D-loop; other site 561230005658 H-loop/switch region; other site 561230005659 TOBE domain; Region: TOBE_2; pfam08402 561230005660 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561230005661 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 561230005662 dimer interface [polypeptide binding]; other site 561230005663 conserved gate region; other site 561230005664 putative PBP binding loops; other site 561230005665 ABC-ATPase subunit interface; other site 561230005666 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561230005667 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 561230005668 dimer interface [polypeptide binding]; other site 561230005669 conserved gate region; other site 561230005670 putative PBP binding loops; other site 561230005671 ABC-ATPase subunit interface; other site 561230005672 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 561230005673 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 561230005674 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 561230005675 S-adenosylmethionine binding site [chemical binding]; other site 561230005676 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 561230005677 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 561230005678 substrate binding pocket [chemical binding]; other site 561230005679 membrane-bound complex binding site; other site 561230005680 hinge residues; other site 561230005681 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 561230005682 dimer interface [polypeptide binding]; other site 561230005683 conserved gate region; other site 561230005684 putative PBP binding loops; other site 561230005685 ABC-ATPase subunit interface; other site 561230005686 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230005687 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 561230005688 dimer interface [polypeptide binding]; other site 561230005689 conserved gate region; other site 561230005690 putative PBP binding loops; other site 561230005691 ABC-ATPase subunit interface; other site 561230005692 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 561230005693 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 561230005694 substrate binding pocket [chemical binding]; other site 561230005695 membrane-bound complex binding site; other site 561230005696 hinge residues; other site 561230005697 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 561230005698 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230005699 Walker A/P-loop; other site 561230005700 ATP binding site [chemical binding]; other site 561230005701 Q-loop/lid; other site 561230005702 ABC transporter signature motif; other site 561230005703 Walker B; other site 561230005704 D-loop; other site 561230005705 H-loop/switch region; other site 561230005706 hypothetical protein; Provisional; Region: PRK02877 561230005707 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 561230005708 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 561230005709 amidase catalytic site [active] 561230005710 Zn binding residues [ion binding]; other site 561230005711 substrate binding site [chemical binding]; other site 561230005712 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 561230005713 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 561230005714 putative NAD(P) binding site [chemical binding]; other site 561230005715 putative active site [active] 561230005716 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 561230005717 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 561230005718 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 561230005719 FAD binding pocket [chemical binding]; other site 561230005720 FAD binding motif [chemical binding]; other site 561230005721 phosphate binding motif [ion binding]; other site 561230005722 beta-alpha-beta structure motif; other site 561230005723 NAD binding pocket [chemical binding]; other site 561230005724 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 561230005725 catalytic loop [active] 561230005726 iron binding site [ion binding]; other site 561230005727 hybrid cluster protein; Provisional; Region: PRK05290 561230005728 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 561230005729 ACS interaction site; other site 561230005730 CODH interaction site; other site 561230005731 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 561230005732 hybrid metal cluster; other site 561230005733 Predicted membrane protein [Function unknown]; Region: COG2431 561230005734 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 561230005735 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 561230005736 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 561230005737 putative active site [active] 561230005738 putative metal-binding site [ion binding]; other site 561230005739 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 561230005740 DNA-binding site [nucleotide binding]; DNA binding site 561230005741 RNA-binding motif; other site 561230005742 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 561230005743 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 561230005744 Clp amino terminal domain; Region: Clp_N; pfam02861 561230005745 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 561230005746 Walker A motif; other site 561230005747 ATP binding site [chemical binding]; other site 561230005748 Walker B motif; other site 561230005749 arginine finger; other site 561230005750 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 561230005751 Walker A motif; other site 561230005752 ATP binding site [chemical binding]; other site 561230005753 Walker B motif; other site 561230005754 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 561230005755 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 561230005756 rRNA binding site [nucleotide binding]; other site 561230005757 predicted 30S ribosome binding site; other site 561230005758 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 561230005759 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 561230005760 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 561230005761 Walker A/P-loop; other site 561230005762 ATP binding site [chemical binding]; other site 561230005763 Q-loop/lid; other site 561230005764 ABC transporter signature motif; other site 561230005765 Walker B; other site 561230005766 D-loop; other site 561230005767 H-loop/switch region; other site 561230005768 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 561230005769 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561230005770 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230005771 Walker A/P-loop; other site 561230005772 ATP binding site [chemical binding]; other site 561230005773 Q-loop/lid; other site 561230005774 ABC transporter signature motif; other site 561230005775 Walker B; other site 561230005776 D-loop; other site 561230005777 H-loop/switch region; other site 561230005778 thioredoxin reductase; Provisional; Region: PRK10262 561230005779 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561230005780 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230005781 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 561230005782 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 561230005783 putative DNA binding site [nucleotide binding]; other site 561230005784 putative Zn2+ binding site [ion binding]; other site 561230005785 AsnC family; Region: AsnC_trans_reg; pfam01037 561230005786 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 561230005787 DNA translocase FtsK; Provisional; Region: PRK10263 561230005788 variable surface protein Vir28; Provisional; Region: PTZ00249 561230005789 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 561230005790 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 561230005791 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 561230005792 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 561230005793 recombination factor protein RarA; Reviewed; Region: PRK13342 561230005794 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 561230005795 Walker A motif; other site 561230005796 ATP binding site [chemical binding]; other site 561230005797 Walker B motif; other site 561230005798 arginine finger; other site 561230005799 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 561230005800 seryl-tRNA synthetase; Provisional; Region: PRK05431 561230005801 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 561230005802 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 561230005803 dimer interface [polypeptide binding]; other site 561230005804 active site 561230005805 motif 1; other site 561230005806 motif 2; other site 561230005807 motif 3; other site 561230005808 putative MFS family transporter protein; Provisional; Region: PRK03633 561230005809 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 561230005810 putative substrate translocation pore; other site 561230005811 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230005812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230005813 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 561230005814 dimerization interface [polypeptide binding]; other site 561230005815 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 561230005816 Na binding site [ion binding]; other site 561230005817 Protein of unknown function (DUF917); Region: DUF917; pfam06032 561230005818 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 561230005819 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 561230005820 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 561230005821 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 561230005822 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 561230005823 FeS/SAM binding site; other site 561230005824 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 561230005825 Pyruvate formate lyase 1; Region: PFL1; cd01678 561230005826 coenzyme A binding site [chemical binding]; other site 561230005827 active site 561230005828 catalytic residues [active] 561230005829 glycine loop; other site 561230005830 formate transporter; Provisional; Region: PRK10805 561230005831 uncharacterized domain; Region: TIGR00702 561230005832 YcaO-like family; Region: YcaO; pfam02624 561230005833 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 561230005834 homodimer interface [polypeptide binding]; other site 561230005835 substrate-cofactor binding pocket; other site 561230005836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230005837 catalytic residue [active] 561230005838 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 561230005839 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 561230005840 hinge; other site 561230005841 active site 561230005842 cytidylate kinase; Provisional; Region: cmk; PRK00023 561230005843 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 561230005844 CMP-binding site; other site 561230005845 The sites determining sugar specificity; other site 561230005846 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 561230005847 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 561230005848 RNA binding site [nucleotide binding]; other site 561230005849 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 561230005850 RNA binding site [nucleotide binding]; other site 561230005851 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 561230005852 RNA binding site [nucleotide binding]; other site 561230005853 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 561230005854 RNA binding site [nucleotide binding]; other site 561230005855 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 561230005856 RNA binding site [nucleotide binding]; other site 561230005857 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 561230005858 RNA binding site [nucleotide binding]; other site 561230005859 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 561230005860 IHF dimer interface [polypeptide binding]; other site 561230005861 IHF - DNA interface [nucleotide binding]; other site 561230005862 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 561230005863 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 561230005864 active site 561230005865 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 561230005866 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 561230005867 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 561230005868 metal binding site [ion binding]; metal-binding site 561230005869 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 561230005870 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 561230005871 substrate binding site [chemical binding]; other site 561230005872 glutamase interaction surface [polypeptide binding]; other site 561230005873 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 561230005874 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 561230005875 catalytic residues [active] 561230005876 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 561230005877 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 561230005878 putative active site [active] 561230005879 oxyanion strand; other site 561230005880 catalytic triad [active] 561230005881 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 561230005882 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 561230005883 active site 561230005884 motif I; other site 561230005885 motif II; other site 561230005886 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 561230005887 putative active site pocket [active] 561230005888 4-fold oligomerization interface [polypeptide binding]; other site 561230005889 metal binding residues [ion binding]; metal-binding site 561230005890 3-fold/trimer interface [polypeptide binding]; other site 561230005891 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 561230005892 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 561230005893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230005894 homodimer interface [polypeptide binding]; other site 561230005895 catalytic residue [active] 561230005896 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 561230005897 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 561230005898 NAD binding site [chemical binding]; other site 561230005899 dimerization interface [polypeptide binding]; other site 561230005900 product binding site; other site 561230005901 substrate binding site [chemical binding]; other site 561230005902 zinc binding site [ion binding]; other site 561230005903 catalytic residues [active] 561230005904 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 561230005905 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 561230005906 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 561230005907 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 561230005908 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 561230005909 putative NAD(P) binding site [chemical binding]; other site 561230005910 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 561230005911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230005912 active site 561230005913 phosphorylation site [posttranslational modification] 561230005914 intermolecular recognition site; other site 561230005915 dimerization interface [polypeptide binding]; other site 561230005916 Transcriptional regulator; Region: CitT; pfam12431 561230005917 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 561230005918 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 561230005919 PAS domain; Region: PAS; smart00091 561230005920 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 561230005921 ATP binding site [chemical binding]; other site 561230005922 Mg2+ binding site [ion binding]; other site 561230005923 G-X-G motif; other site 561230005924 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 561230005925 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 561230005926 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 561230005927 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 561230005928 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 561230005929 putative active site [active] 561230005930 (T/H)XGH motif; other site 561230005931 citrate lyase subunit gamma; Provisional; Region: PRK13253 561230005932 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 561230005933 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 561230005934 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 561230005935 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 561230005936 Flagellar regulator YcgR; Region: YcgR; pfam07317 561230005937 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 561230005938 PilZ domain; Region: PilZ; pfam07238 561230005939 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 561230005940 exonuclease I; Provisional; Region: sbcB; PRK11779 561230005941 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 561230005942 active site 561230005943 catalytic site [active] 561230005944 substrate binding site [chemical binding]; other site 561230005945 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 561230005946 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 561230005947 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 561230005948 putative ligand binding residues [chemical binding]; other site 561230005949 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561230005950 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 561230005951 ABC-ATPase subunit interface; other site 561230005952 dimer interface [polypeptide binding]; other site 561230005953 putative PBP binding regions; other site 561230005954 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 561230005955 ABC-ATPase subunit interface; other site 561230005956 dimer interface [polypeptide binding]; other site 561230005957 putative PBP binding regions; other site 561230005958 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 561230005959 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561230005960 Walker A/P-loop; other site 561230005961 ATP binding site [chemical binding]; other site 561230005962 Q-loop/lid; other site 561230005963 ABC transporter signature motif; other site 561230005964 Walker B; other site 561230005965 D-loop; other site 561230005966 H-loop/switch region; other site 561230005967 hypothetical protein; Provisional; Region: PRK05423 561230005968 ComEC family competence protein; Provisional; Region: PRK11539 561230005969 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 561230005970 Competence protein; Region: Competence; pfam03772 561230005971 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 561230005972 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 561230005973 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561230005974 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 561230005975 Walker A/P-loop; other site 561230005976 ATP binding site [chemical binding]; other site 561230005977 Q-loop/lid; other site 561230005978 ABC transporter signature motif; other site 561230005979 Walker B; other site 561230005980 D-loop; other site 561230005981 H-loop/switch region; other site 561230005982 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 561230005983 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 561230005984 Trm112p-like protein; Region: Trm112p; cl01066 561230005985 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 561230005986 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 561230005987 Ligand binding site; other site 561230005988 oligomer interface; other site 561230005989 Right handed beta helix region; Region: Beta_helix; pfam13229 561230005990 hypothetical protein; Provisional; Region: PRK10593 561230005991 Uncharacterized conserved protein [Function unknown]; Region: COG1434 561230005992 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 561230005993 putative active site [active] 561230005994 Methyltransferase domain; Region: Methyltransf_31; pfam13847 561230005995 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 561230005996 S-adenosylmethionine binding site [chemical binding]; other site 561230005997 condesin subunit F; Provisional; Region: PRK05260 561230005998 condesin subunit E; Provisional; Region: PRK05256 561230005999 cell division protein MukB; Provisional; Region: mukB; PRK04863 561230006000 P-loop containing region of AAA domain; Region: AAA_29; cl17516 561230006001 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 561230006002 murein L,D-transpeptidase; Provisional; Region: PRK10594 561230006003 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 561230006004 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 561230006005 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cl03181 561230006006 active site 561230006007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 561230006008 Peptidase M15; Region: Peptidase_M15_3; cl01194 561230006009 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 561230006010 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 561230006011 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 561230006012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230006013 homodimer interface [polypeptide binding]; other site 561230006014 catalytic residue [active] 561230006015 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 561230006016 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 561230006017 trimer interface [polypeptide binding]; other site 561230006018 eyelet of channel; other site 561230006019 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 561230006020 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 561230006021 putative dimer interface [polypeptide binding]; other site 561230006022 putative anticodon binding site; other site 561230006023 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 561230006024 homodimer interface [polypeptide binding]; other site 561230006025 motif 1; other site 561230006026 motif 2; other site 561230006027 active site 561230006028 motif 3; other site 561230006029 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 561230006030 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 561230006031 active site 561230006032 aminopeptidase N; Provisional; Region: pepN; PRK14015 561230006033 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 561230006034 active site 561230006035 Zn binding site [ion binding]; other site 561230006036 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 561230006037 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 561230006038 quinone interaction residues [chemical binding]; other site 561230006039 active site 561230006040 catalytic residues [active] 561230006041 FMN binding site [chemical binding]; other site 561230006042 substrate binding site [chemical binding]; other site 561230006043 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 561230006044 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 561230006045 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 561230006046 MOSC domain; Region: MOSC; pfam03473 561230006047 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 561230006048 catalytic loop [active] 561230006049 iron binding site [ion binding]; other site 561230006050 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 561230006051 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 561230006052 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 561230006053 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 561230006054 S-adenosylmethionine binding site [chemical binding]; other site 561230006055 ABC transporter ATPase component; Reviewed; Region: PRK11147 561230006056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230006057 Walker A/P-loop; other site 561230006058 ATP binding site [chemical binding]; other site 561230006059 Q-loop/lid; other site 561230006060 ABC transporter signature motif; other site 561230006061 Walker B; other site 561230006062 D-loop; other site 561230006063 H-loop/switch region; other site 561230006064 ABC transporter; Region: ABC_tran_2; pfam12848 561230006065 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561230006066 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 561230006067 Paraquat-inducible protein A; Region: PqiA; pfam04403 561230006068 Paraquat-inducible protein A; Region: PqiA; pfam04403 561230006069 paraquat-inducible protein B; Provisional; Region: PRK10807 561230006070 mce related protein; Region: MCE; pfam02470 561230006071 mce related protein; Region: MCE; pfam02470 561230006072 mce related protein; Region: MCE; pfam02470 561230006073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 561230006074 Protein of unknown function (DUF330); Region: DUF330; pfam03886 561230006075 ribosome modulation factor; Provisional; Region: PRK14563 561230006076 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 561230006077 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230006078 dimer interface [polypeptide binding]; other site 561230006079 putative CheW interface [polypeptide binding]; other site 561230006080 putative hydrolase; Validated; Region: PRK09248 561230006081 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 561230006082 active site 561230006083 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 561230006084 lipoprotein; Provisional; Region: PRK10598 561230006085 glutaredoxin 2; Provisional; Region: PRK10387 561230006086 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 561230006087 C-terminal domain interface [polypeptide binding]; other site 561230006088 GSH binding site (G-site) [chemical binding]; other site 561230006089 catalytic residues [active] 561230006090 putative dimer interface [polypeptide binding]; other site 561230006091 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 561230006092 N-terminal domain interface [polypeptide binding]; other site 561230006093 multidrug resistance protein MdtH; Provisional; Region: PRK11646 561230006094 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 561230006095 putative substrate translocation pore; other site 561230006096 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 561230006097 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 561230006098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 561230006099 hypothetical protein; Provisional; Region: PRK11239 561230006100 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561230006101 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561230006102 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 561230006103 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 561230006104 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 561230006105 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 561230006106 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 561230006107 active site 561230006108 HIGH motif; other site 561230006109 KMSK motif region; other site 561230006110 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 561230006111 tRNA binding surface [nucleotide binding]; other site 561230006112 anticodon binding site; other site 561230006113 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 561230006114 putative metal binding site [ion binding]; other site 561230006115 copper homeostasis protein CutC; Provisional; Region: PRK11572 561230006116 Methyltransferase domain; Region: Methyltransf_23; pfam13489 561230006117 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 561230006118 S-adenosylmethionine binding site [chemical binding]; other site 561230006119 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 561230006120 S-adenosylmethionine binding site [chemical binding]; other site 561230006121 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 561230006122 hypothetical protein; Provisional; Region: PRK10302 561230006123 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 561230006124 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 561230006125 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 561230006126 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 561230006127 dimer interface [polypeptide binding]; other site 561230006128 anticodon binding site; other site 561230006129 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 561230006130 homodimer interface [polypeptide binding]; other site 561230006131 motif 1; other site 561230006132 active site 561230006133 motif 2; other site 561230006134 GAD domain; Region: GAD; pfam02938 561230006135 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 561230006136 active site 561230006137 motif 3; other site 561230006138 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 561230006139 nudix motif; other site 561230006140 hypothetical protein; Validated; Region: PRK00110 561230006141 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 561230006142 active site 561230006143 putative DNA-binding cleft [nucleotide binding]; other site 561230006144 dimer interface [polypeptide binding]; other site 561230006145 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 561230006146 RuvA N terminal domain; Region: RuvA_N; pfam01330 561230006147 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 561230006148 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 561230006149 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 561230006150 Walker A motif; other site 561230006151 ATP binding site [chemical binding]; other site 561230006152 Walker B motif; other site 561230006153 arginine finger; other site 561230006154 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 561230006155 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 561230006156 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 561230006157 methionine cluster; other site 561230006158 active site 561230006159 phosphorylation site [posttranslational modification] 561230006160 metal binding site [ion binding]; metal-binding site 561230006161 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 561230006162 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 561230006163 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230006164 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230006165 DNA binding site [nucleotide binding] 561230006166 domain linker motif; other site 561230006167 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 561230006168 ligand binding site [chemical binding]; other site 561230006169 dimerization interface [polypeptide binding]; other site 561230006170 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561230006171 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 561230006172 ABC-ATPase subunit interface; other site 561230006173 dimer interface [polypeptide binding]; other site 561230006174 putative PBP binding regions; other site 561230006175 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 561230006176 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 561230006177 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 561230006178 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 561230006179 metal binding site [ion binding]; metal-binding site 561230006180 putative peptidase; Provisional; Region: PRK11649 561230006181 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 561230006182 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561230006183 Peptidase family M23; Region: Peptidase_M23; pfam01551 561230006184 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 561230006185 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 561230006186 putative acyl-acceptor binding pocket; other site 561230006187 pyruvate kinase; Provisional; Region: PRK05826 561230006188 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 561230006189 domain interfaces; other site 561230006190 active site 561230006191 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 561230006192 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 561230006193 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 561230006194 putative active site [active] 561230006195 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 561230006196 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 561230006197 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 561230006198 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 561230006199 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 561230006200 active site 561230006201 intersubunit interface [polypeptide binding]; other site 561230006202 catalytic residue [active] 561230006203 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 561230006204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561230006205 ATP-grasp domain; Region: ATP-grasp; pfam02222 561230006206 protease 2; Provisional; Region: PRK10115 561230006207 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561230006208 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 561230006209 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 561230006210 Ferritin-like domain; Region: Ferritin; pfam00210 561230006211 ferroxidase diiron center [ion binding]; other site 561230006212 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 561230006213 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 561230006214 DNA-binding site [nucleotide binding]; DNA binding site 561230006215 RNA-binding motif; other site 561230006216 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 561230006217 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 561230006218 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 561230006219 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 561230006220 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 561230006221 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 561230006222 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 561230006223 S-adenosylmethionine binding site [chemical binding]; other site 561230006224 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 561230006225 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 561230006226 mce related protein; Region: MCE; pfam02470 561230006227 mce related protein; Region: MCE; pfam02470 561230006228 mce related protein; Region: MCE; pfam02470 561230006229 mce related protein; Region: MCE; pfam02470 561230006230 mce related protein; Region: MCE; pfam02470 561230006231 mce related protein; Region: MCE; pfam02470 561230006232 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 561230006233 Paraquat-inducible protein A; Region: PqiA; pfam04403 561230006234 Paraquat-inducible protein A; Region: PqiA; pfam04403 561230006235 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 561230006236 GAF domain; Region: GAF_2; pfam13185 561230006237 ProP expression regulator; Provisional; Region: PRK04950 561230006238 ProQ/FINO family; Region: ProQ; smart00945 561230006239 carboxy-terminal protease; Provisional; Region: PRK11186 561230006240 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 561230006241 protein binding site [polypeptide binding]; other site 561230006242 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 561230006243 Catalytic dyad [active] 561230006244 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 561230006245 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230006246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230006247 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 561230006248 substrate binding site [chemical binding]; other site 561230006249 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561230006250 Helix-turn-helix domain; Region: HTH_18; pfam12833 561230006251 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230006252 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 561230006253 putative substrate translocation pore; other site 561230006254 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230006255 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 561230006256 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 561230006257 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 561230006258 DNA binding site [nucleotide binding] 561230006259 active site 561230006260 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 561230006261 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 561230006262 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561230006263 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 561230006264 dimer interface [polypeptide binding]; other site 561230006265 conserved gate region; other site 561230006266 putative PBP binding loops; other site 561230006267 ABC-ATPase subunit interface; other site 561230006268 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561230006269 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 561230006270 dimer interface [polypeptide binding]; other site 561230006271 conserved gate region; other site 561230006272 putative PBP binding loops; other site 561230006273 ABC-ATPase subunit interface; other site 561230006274 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 561230006275 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 561230006276 Walker A/P-loop; other site 561230006277 ATP binding site [chemical binding]; other site 561230006278 Q-loop/lid; other site 561230006279 ABC transporter signature motif; other site 561230006280 Walker B; other site 561230006281 D-loop; other site 561230006282 H-loop/switch region; other site 561230006283 TOBE domain; Region: TOBE_2; pfam08402 561230006284 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 561230006285 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 561230006286 metal binding site [ion binding]; metal-binding site 561230006287 dimer interface [polypeptide binding]; other site 561230006288 Uncharacterized conserved protein [Function unknown]; Region: COG2850 561230006289 Cupin-like domain; Region: Cupin_8; pfam13621 561230006290 sensor protein PhoQ; Provisional; Region: PRK10815 561230006291 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 561230006292 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 561230006293 dimer interface [polypeptide binding]; other site 561230006294 phosphorylation site [posttranslational modification] 561230006295 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 561230006296 ATP binding site [chemical binding]; other site 561230006297 Mg2+ binding site [ion binding]; other site 561230006298 G-X-G motif; other site 561230006299 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 561230006300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230006301 active site 561230006302 phosphorylation site [posttranslational modification] 561230006303 intermolecular recognition site; other site 561230006304 dimerization interface [polypeptide binding]; other site 561230006305 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 561230006306 DNA binding site [nucleotide binding] 561230006307 adenylosuccinate lyase; Provisional; Region: PRK09285 561230006308 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 561230006309 tetramer interface [polypeptide binding]; other site 561230006310 active site 561230006311 putative lysogenization regulator; Reviewed; Region: PRK00218 561230006312 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 561230006313 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 561230006314 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 561230006315 nudix motif; other site 561230006316 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 561230006317 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 561230006318 active site 561230006319 isocitrate dehydrogenase; Validated; Region: PRK07362 561230006320 isocitrate dehydrogenase; Reviewed; Region: PRK07006 561230006321 4Fe-4S binding domain; Region: Fer4_5; pfam12801 561230006322 4Fe-4S binding domain; Region: Fer4_5; pfam12801 561230006323 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 561230006324 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 561230006325 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 561230006326 Mor transcription activator family; Region: Mor; pfam08765 561230006327 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 561230006328 non-specific DNA binding site [nucleotide binding]; other site 561230006329 salt bridge; other site 561230006330 Predicted transcriptional regulator [Transcription]; Region: COG2932 561230006331 sequence-specific DNA binding site [nucleotide binding]; other site 561230006332 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 561230006333 Catalytic site [active] 561230006334 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 561230006335 GAF domain; Region: GAF; pfam01590 561230006336 PAS domain S-box; Region: sensory_box; TIGR00229 561230006337 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 561230006338 putative active site [active] 561230006339 heme pocket [chemical binding]; other site 561230006340 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230006341 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230006342 metal binding site [ion binding]; metal-binding site 561230006343 active site 561230006344 I-site; other site 561230006345 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 561230006346 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 561230006347 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 561230006348 GAF domain; Region: GAF_3; pfam13492 561230006349 Histidine kinase; Region: His_kinase; pfam06580 561230006350 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 561230006351 ATP binding site [chemical binding]; other site 561230006352 Mg2+ binding site [ion binding]; other site 561230006353 G-X-G motif; other site 561230006354 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 561230006355 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230006356 active site 561230006357 phosphorylation site [posttranslational modification] 561230006358 intermolecular recognition site; other site 561230006359 dimerization interface [polypeptide binding]; other site 561230006360 LytTr DNA-binding domain; Region: LytTR; pfam04397 561230006361 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 561230006362 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 561230006363 putative substrate translocation pore; other site 561230006364 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561230006365 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561230006366 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 561230006367 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 561230006368 putative active site [active] 561230006369 catalytic site [active] 561230006370 putative metal binding site [ion binding]; other site 561230006371 oligomer interface [polypeptide binding]; other site 561230006372 heat shock protein HtpX; Provisional; Region: PRK05457 561230006373 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 561230006374 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 561230006375 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 561230006376 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 561230006377 dimerization interface [polypeptide binding]; other site 561230006378 putative Zn2+ binding site [ion binding]; other site 561230006379 putative DNA binding site [nucleotide binding]; other site 561230006380 Bacterial transcriptional regulator; Region: IclR; pfam01614 561230006381 YebO-like protein; Region: YebO; pfam13974 561230006382 aromatic amino acid transporter; Provisional; Region: PRK10238 561230006383 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 561230006384 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 561230006385 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 561230006386 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 561230006387 active site 561230006388 dimer interface [polypeptide binding]; other site 561230006389 motif 1; other site 561230006390 motif 2; other site 561230006391 motif 3; other site 561230006392 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 561230006393 anticodon binding site; other site 561230006394 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 561230006395 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 561230006396 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 561230006397 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 561230006398 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 561230006399 23S rRNA binding site [nucleotide binding]; other site 561230006400 L21 binding site [polypeptide binding]; other site 561230006401 L13 binding site [polypeptide binding]; other site 561230006402 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 561230006403 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 561230006404 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 561230006405 dimer interface [polypeptide binding]; other site 561230006406 motif 1; other site 561230006407 active site 561230006408 motif 2; other site 561230006409 motif 3; other site 561230006410 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 561230006411 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 561230006412 putative tRNA-binding site [nucleotide binding]; other site 561230006413 B3/4 domain; Region: B3_4; pfam03483 561230006414 tRNA synthetase B5 domain; Region: B5; smart00874 561230006415 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 561230006416 dimer interface [polypeptide binding]; other site 561230006417 motif 1; other site 561230006418 motif 3; other site 561230006419 motif 2; other site 561230006420 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 561230006421 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 561230006422 IHF dimer interface [polypeptide binding]; other site 561230006423 IHF - DNA interface [nucleotide binding]; other site 561230006424 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 561230006425 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 561230006426 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561230006427 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 561230006428 Walker A/P-loop; other site 561230006429 ATP binding site [chemical binding]; other site 561230006430 Q-loop/lid; other site 561230006431 ABC transporter signature motif; other site 561230006432 Walker B; other site 561230006433 D-loop; other site 561230006434 H-loop/switch region; other site 561230006435 aromatic amino acid exporter; Provisional; Region: PRK11689 561230006436 EamA-like transporter family; Region: EamA; cl17759 561230006437 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 561230006438 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 561230006439 homodimer interface [polypeptide binding]; other site 561230006440 NAD binding pocket [chemical binding]; other site 561230006441 ATP binding pocket [chemical binding]; other site 561230006442 Mg binding site [ion binding]; other site 561230006443 active-site loop [active] 561230006444 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 561230006445 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 561230006446 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561230006447 inner membrane protein; Provisional; Region: PRK11648 561230006448 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 561230006449 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561230006450 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 561230006451 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561230006452 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561230006453 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 561230006454 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561230006455 Walker A/P-loop; other site 561230006456 ATP binding site [chemical binding]; other site 561230006457 Q-loop/lid; other site 561230006458 ABC transporter signature motif; other site 561230006459 Walker B; other site 561230006460 D-loop; other site 561230006461 H-loop/switch region; other site 561230006462 TOBE domain; Region: TOBE; pfam03459 561230006463 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561230006464 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 561230006465 dimer interface [polypeptide binding]; other site 561230006466 conserved gate region; other site 561230006467 putative PBP binding loops; other site 561230006468 ABC-ATPase subunit interface; other site 561230006469 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 561230006470 dimer interface [polypeptide binding]; other site 561230006471 conserved gate region; other site 561230006472 putative PBP binding loops; other site 561230006473 ABC-ATPase subunit interface; other site 561230006474 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 561230006475 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 561230006476 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 561230006477 NADP binding site [chemical binding]; other site 561230006478 homodimer interface [polypeptide binding]; other site 561230006479 active site 561230006480 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 561230006481 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 561230006482 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 561230006483 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561230006484 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 561230006485 motif II; other site 561230006486 YniB-like protein; Region: YniB; pfam14002 561230006487 Phosphotransferase enzyme family; Region: APH; pfam01636 561230006488 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 561230006489 active site 561230006490 ATP binding site [chemical binding]; other site 561230006491 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 561230006492 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561230006493 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 561230006494 ABC-ATPase subunit interface; other site 561230006495 dimer interface [polypeptide binding]; other site 561230006496 putative PBP binding regions; other site 561230006497 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561230006498 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 561230006499 ABC-ATPase subunit interface; other site 561230006500 dimer interface [polypeptide binding]; other site 561230006501 putative PBP binding regions; other site 561230006502 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 561230006503 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 561230006504 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 561230006505 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 561230006506 metal binding site [ion binding]; metal-binding site 561230006507 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 561230006508 DNA-binding site [nucleotide binding]; DNA binding site 561230006509 RNA-binding motif; other site 561230006510 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 561230006511 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 561230006512 S-adenosylmethionine binding site [chemical binding]; other site 561230006513 hypothetical protein; Provisional; Region: PRK11469 561230006514 Domain of unknown function DUF; Region: DUF204; pfam02659 561230006515 Domain of unknown function DUF; Region: DUF204; pfam02659 561230006516 hypothetical protein; Provisional; Region: PRK02913 561230006517 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 561230006518 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 561230006519 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 561230006520 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 561230006521 active pocket/dimerization site; other site 561230006522 active site 561230006523 phosphorylation site [posttranslational modification] 561230006524 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 561230006525 active site 561230006526 phosphorylation site [posttranslational modification] 561230006527 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 561230006528 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 561230006529 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 561230006530 Transporter associated domain; Region: CorC_HlyC; smart01091 561230006531 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 561230006532 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 561230006533 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 561230006534 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 561230006535 putative active site [active] 561230006536 putative CoA binding site [chemical binding]; other site 561230006537 nudix motif; other site 561230006538 metal binding site [ion binding]; metal-binding site 561230006539 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 561230006540 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 561230006541 chorismate binding enzyme; Region: Chorismate_bind; cl10555 561230006542 hypothetical protein; Provisional; Region: PRK05114 561230006543 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 561230006544 homotrimer interaction site [polypeptide binding]; other site 561230006545 putative active site [active] 561230006546 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 561230006547 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 561230006548 DEAD_2; Region: DEAD_2; pfam06733 561230006549 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 561230006550 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 561230006551 Glycoprotease family; Region: Peptidase_M22; pfam00814 561230006552 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 561230006553 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 561230006554 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561230006555 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 561230006556 acyl-activating enzyme (AAE) consensus motif; other site 561230006557 putative AMP binding site [chemical binding]; other site 561230006558 putative active site [active] 561230006559 putative CoA binding site [chemical binding]; other site 561230006560 ribonuclease D; Provisional; Region: PRK10829 561230006561 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 561230006562 catalytic site [active] 561230006563 putative active site [active] 561230006564 putative substrate binding site [chemical binding]; other site 561230006565 HRDC domain; Region: HRDC; pfam00570 561230006566 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 561230006567 cell division inhibitor MinD; Provisional; Region: PRK10818 561230006568 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 561230006569 Switch I; other site 561230006570 Switch II; other site 561230006571 septum formation inhibitor; Reviewed; Region: minC; PRK03511 561230006572 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 561230006573 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 561230006574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 561230006575 hypothetical protein; Provisional; Region: PRK10691 561230006576 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 561230006577 hypothetical protein; Provisional; Region: PRK05170 561230006578 Glycogen synthesis protein; Region: GlgS; cl11663 561230006579 disulfide bond formation protein B; Provisional; Region: PRK01749 561230006580 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 561230006581 fatty acid metabolism regulator; Provisional; Region: PRK04984 561230006582 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230006583 DNA-binding site [nucleotide binding]; DNA binding site 561230006584 FadR C-terminal domain; Region: FadR_C; pfam07840 561230006585 SpoVR family protein; Provisional; Region: PRK11767 561230006586 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 561230006587 Class I aldolases; Region: Aldolase_Class_I; cl17187 561230006588 catalytic residue [active] 561230006589 AAA domain; Region: AAA_17; pfam13207 561230006590 AAA domain; Region: AAA_18; pfam13238 561230006591 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 561230006592 active site 561230006593 phosphorylation site [posttranslational modification] 561230006594 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 561230006595 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 561230006596 active site 561230006597 P-loop; other site 561230006598 phosphorylation site [posttranslational modification] 561230006599 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 561230006600 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 561230006601 active site 561230006602 ADP/pyrophosphate binding site [chemical binding]; other site 561230006603 dimerization interface [polypeptide binding]; other site 561230006604 allosteric effector site; other site 561230006605 fructose-1,6-bisphosphate binding site; other site 561230006606 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 561230006607 hydroxyglutarate oxidase; Provisional; Region: PRK11728 561230006608 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 561230006609 putative substrate translocation pore; other site 561230006610 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 561230006611 hypothetical protein; Provisional; Region: PRK05325 561230006612 PrkA family serine protein kinase; Provisional; Region: PRK15455 561230006613 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 561230006614 Walker A motif; other site 561230006615 ATP binding site [chemical binding]; other site 561230006616 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 561230006617 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 561230006618 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 561230006619 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561230006620 active site 561230006621 catalytic tetrad [active] 561230006622 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 561230006623 active site 561230006624 phosphate binding residues; other site 561230006625 catalytic residues [active] 561230006626 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 561230006627 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 561230006628 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 561230006629 methionine sulfoxide reductase B; Provisional; Region: PRK00222 561230006630 SelR domain; Region: SelR; pfam01641 561230006631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 561230006632 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 561230006633 Isochorismatase family; Region: Isochorismatase; pfam00857 561230006634 catalytic triad [active] 561230006635 metal binding site [ion binding]; metal-binding site 561230006636 conserved cis-peptide bond; other site 561230006637 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 561230006638 active site 561230006639 homodimer interface [polypeptide binding]; other site 561230006640 protease 4; Provisional; Region: PRK10949 561230006641 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 561230006642 tandem repeat interface [polypeptide binding]; other site 561230006643 oligomer interface [polypeptide binding]; other site 561230006644 active site residues [active] 561230006645 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 561230006646 tandem repeat interface [polypeptide binding]; other site 561230006647 oligomer interface [polypeptide binding]; other site 561230006648 active site residues [active] 561230006649 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 561230006650 putative FMN binding site [chemical binding]; other site 561230006651 DNA topoisomerase III; Provisional; Region: PRK07726 561230006652 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 561230006653 active site 561230006654 putative interdomain interaction site [polypeptide binding]; other site 561230006655 putative metal-binding site [ion binding]; other site 561230006656 putative nucleotide binding site [chemical binding]; other site 561230006657 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 561230006658 domain I; other site 561230006659 DNA binding groove [nucleotide binding] 561230006660 phosphate binding site [ion binding]; other site 561230006661 domain II; other site 561230006662 domain III; other site 561230006663 nucleotide binding site [chemical binding]; other site 561230006664 catalytic site [active] 561230006665 domain IV; other site 561230006666 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 561230006667 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 561230006668 putative catalytic site [active] 561230006669 putative phosphate binding site [ion binding]; other site 561230006670 active site 561230006671 metal binding site A [ion binding]; metal-binding site 561230006672 DNA binding site [nucleotide binding] 561230006673 putative AP binding site [nucleotide binding]; other site 561230006674 putative metal binding site B [ion binding]; other site 561230006675 Predicted membrane protein [Function unknown]; Region: COG2860 561230006676 UPF0126 domain; Region: UPF0126; pfam03458 561230006677 UPF0126 domain; Region: UPF0126; pfam03458 561230006678 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 561230006679 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 561230006680 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 561230006681 putative active site [active] 561230006682 putative substrate binding site [chemical binding]; other site 561230006683 putative cosubstrate binding site; other site 561230006684 catalytic site [active] 561230006685 hypothetical protein; Provisional; Region: PRK01617 561230006686 SEC-C motif; Region: SEC-C; pfam02810 561230006687 hypothetical protein; Provisional; Region: PRK10279 561230006688 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 561230006689 active site 561230006690 nucleophile elbow; other site 561230006691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230006692 active site 561230006693 response regulator of RpoS; Provisional; Region: PRK10693 561230006694 phosphorylation site [posttranslational modification] 561230006695 intermolecular recognition site; other site 561230006696 dimerization interface [polypeptide binding]; other site 561230006697 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 561230006698 active site 561230006699 tetramer interface; other site 561230006700 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 561230006701 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 561230006702 thymidine kinase; Provisional; Region: PRK04296 561230006703 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 561230006704 ATP binding site [chemical binding]; other site 561230006705 Walker A motif; other site 561230006706 Walker B motif; other site 561230006707 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 561230006708 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 561230006709 putative catalytic cysteine [active] 561230006710 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 561230006711 putative active site [active] 561230006712 metal binding site [ion binding]; metal-binding site 561230006713 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 561230006714 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 561230006715 peptide binding site [polypeptide binding]; other site 561230006716 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 561230006717 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 561230006718 peptide binding site [polypeptide binding]; other site 561230006719 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 561230006720 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 561230006721 dimer interface [polypeptide binding]; other site 561230006722 conserved gate region; other site 561230006723 putative PBP binding loops; other site 561230006724 ABC-ATPase subunit interface; other site 561230006725 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 561230006726 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561230006727 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 561230006728 dimer interface [polypeptide binding]; other site 561230006729 conserved gate region; other site 561230006730 ABC-ATPase subunit interface; other site 561230006731 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 561230006732 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230006733 Walker A/P-loop; other site 561230006734 ATP binding site [chemical binding]; other site 561230006735 Q-loop/lid; other site 561230006736 ABC transporter signature motif; other site 561230006737 Walker B; other site 561230006738 D-loop; other site 561230006739 H-loop/switch region; other site 561230006740 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 561230006741 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 561230006742 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230006743 Walker A/P-loop; other site 561230006744 ATP binding site [chemical binding]; other site 561230006745 Q-loop/lid; other site 561230006746 ABC transporter signature motif; other site 561230006747 Walker B; other site 561230006748 D-loop; other site 561230006749 H-loop/switch region; other site 561230006750 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 561230006751 dsDNA-mimic protein; Reviewed; Region: PRK05094 561230006752 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 561230006753 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 561230006754 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 561230006755 putative active site [active] 561230006756 catalytic site [active] 561230006757 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 561230006758 putative active site [active] 561230006759 catalytic site [active] 561230006760 methyl-accepting protein IV; Provisional; Region: PRK09793 561230006761 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561230006762 dimer interface [polypeptide binding]; other site 561230006763 ligand binding site [chemical binding]; other site 561230006764 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 561230006765 dimerization interface [polypeptide binding]; other site 561230006766 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230006767 dimer interface [polypeptide binding]; other site 561230006768 putative CheW interface [polypeptide binding]; other site 561230006769 YciI-like protein; Reviewed; Region: PRK11370 561230006770 transport protein TonB; Provisional; Region: PRK10819 561230006771 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 561230006772 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 561230006773 intracellular septation protein A; Reviewed; Region: PRK00259 561230006774 hypothetical protein; Provisional; Region: PRK02868 561230006775 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 561230006776 outer membrane protein W; Provisional; Region: PRK10959 561230006777 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 561230006778 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 561230006779 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 561230006780 substrate binding site [chemical binding]; other site 561230006781 active site 561230006782 catalytic residues [active] 561230006783 heterodimer interface [polypeptide binding]; other site 561230006784 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 561230006785 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 561230006786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230006787 catalytic residue [active] 561230006788 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 561230006789 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 561230006790 active site 561230006791 ribulose/triose binding site [chemical binding]; other site 561230006792 phosphate binding site [ion binding]; other site 561230006793 substrate (anthranilate) binding pocket [chemical binding]; other site 561230006794 product (indole) binding pocket [chemical binding]; other site 561230006795 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 561230006796 active site 561230006797 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 561230006798 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 561230006799 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 561230006800 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 561230006801 Glutamine amidotransferase class-I; Region: GATase; pfam00117 561230006802 glutamine binding [chemical binding]; other site 561230006803 catalytic triad [active] 561230006804 anthranilate synthase component I; Provisional; Region: PRK13564 561230006805 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 561230006806 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 561230006807 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 561230006808 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 561230006809 active site 561230006810 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 561230006811 hypothetical protein; Provisional; Region: PRK11630 561230006812 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 561230006813 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 561230006814 RNA binding surface [nucleotide binding]; other site 561230006815 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 561230006816 probable active site [active] 561230006817 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 561230006818 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 561230006819 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 561230006820 homodimer interface [polypeptide binding]; other site 561230006821 Walker A motif; other site 561230006822 ATP binding site [chemical binding]; other site 561230006823 hydroxycobalamin binding site [chemical binding]; other site 561230006824 Walker B motif; other site 561230006825 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 561230006826 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 561230006827 NADP binding site [chemical binding]; other site 561230006828 homodimer interface [polypeptide binding]; other site 561230006829 active site 561230006830 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 561230006831 putative inner membrane peptidase; Provisional; Region: PRK11778 561230006832 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 561230006833 tandem repeat interface [polypeptide binding]; other site 561230006834 oligomer interface [polypeptide binding]; other site 561230006835 active site residues [active] 561230006836 hypothetical protein; Provisional; Region: PRK11037 561230006837 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 561230006838 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 561230006839 active site 561230006840 interdomain interaction site; other site 561230006841 putative metal-binding site [ion binding]; other site 561230006842 nucleotide binding site [chemical binding]; other site 561230006843 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 561230006844 domain I; other site 561230006845 DNA binding groove [nucleotide binding] 561230006846 phosphate binding site [ion binding]; other site 561230006847 domain II; other site 561230006848 domain III; other site 561230006849 nucleotide binding site [chemical binding]; other site 561230006850 catalytic site [active] 561230006851 domain IV; other site 561230006852 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561230006853 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561230006854 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 561230006855 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 561230006856 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 561230006857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230006858 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 561230006859 substrate binding site [chemical binding]; other site 561230006860 putative dimerization interface [polypeptide binding]; other site 561230006861 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 561230006862 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 561230006863 putative substrate translocation pore; other site 561230006864 POT family; Region: PTR2; pfam00854 561230006865 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 561230006866 S-adenosylmethionine binding site [chemical binding]; other site 561230006867 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 561230006868 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 561230006869 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230006870 catalytic residue [active] 561230006871 endonuclease III; Provisional; Region: PRK10702 561230006872 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 561230006873 minor groove reading motif; other site 561230006874 helix-hairpin-helix signature motif; other site 561230006875 substrate binding pocket [chemical binding]; other site 561230006876 active site 561230006877 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 561230006878 electron transport complex RsxE subunit; Provisional; Region: PRK12405 561230006879 electron transport complex protein RnfG; Validated; Region: PRK01908 561230006880 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 561230006881 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 561230006882 SLBB domain; Region: SLBB; pfam10531 561230006883 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 561230006884 electron transport complex protein RnfB; Provisional; Region: PRK05113 561230006885 Putative Fe-S cluster; Region: FeS; cl17515 561230006886 4Fe-4S binding domain; Region: Fer4; pfam00037 561230006887 electron transport complex protein RsxA; Provisional; Region: PRK05151 561230006888 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 561230006889 L-arabinose isomerase; Provisional; Region: PRK02929 561230006890 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 561230006891 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 561230006892 trimer interface [polypeptide binding]; other site 561230006893 putative substrate binding site [chemical binding]; other site 561230006894 putative metal binding site [ion binding]; other site 561230006895 ribulokinase; Provisional; Region: PRK04123 561230006896 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 561230006897 N- and C-terminal domain interface [polypeptide binding]; other site 561230006898 active site 561230006899 MgATP binding site [chemical binding]; other site 561230006900 catalytic site [active] 561230006901 metal binding site [ion binding]; metal-binding site 561230006902 carbohydrate binding site [chemical binding]; other site 561230006903 homodimer interface [polypeptide binding]; other site 561230006904 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 561230006905 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 561230006906 ligand binding site [chemical binding]; other site 561230006907 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 561230006908 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561230006909 Walker A/P-loop; other site 561230006910 ATP binding site [chemical binding]; other site 561230006911 Q-loop/lid; other site 561230006912 ABC transporter signature motif; other site 561230006913 Walker B; other site 561230006914 D-loop; other site 561230006915 H-loop/switch region; other site 561230006916 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561230006917 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 561230006918 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230006919 TM-ABC transporter signature motif; other site 561230006920 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 561230006921 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561230006922 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230006923 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230006924 putative oxidoreductase; Provisional; Region: PRK11579 561230006925 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561230006926 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561230006927 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 561230006928 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 561230006929 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 561230006930 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 561230006931 adenosine deaminase; Provisional; Region: PRK09358 561230006932 active site 561230006933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 561230006934 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 561230006935 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 561230006936 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 561230006937 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 561230006938 fumarate hydratase; Reviewed; Region: fumC; PRK00485 561230006939 Class II fumarases; Region: Fumarase_classII; cd01362 561230006940 active site 561230006941 tetramer interface [polypeptide binding]; other site 561230006942 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 561230006943 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561230006944 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 561230006945 putative substrate translocation pore; other site 561230006946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230006947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230006948 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 561230006949 dimerization interface [polypeptide binding]; other site 561230006950 substrate binding pocket [chemical binding]; other site 561230006951 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 561230006952 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 561230006953 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561230006954 nucleotide binding site [chemical binding]; other site 561230006955 putative dithiobiotin synthetase; Provisional; Region: PRK12374 561230006956 AAA domain; Region: AAA_26; pfam13500 561230006957 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 561230006958 putative substrate translocation pore; other site 561230006959 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230006960 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 561230006961 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 561230006962 hypothetical protein; Provisional; Region: PRK13659 561230006963 malonic semialdehyde reductase; Provisional; Region: PRK10538 561230006964 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 561230006965 putative NAD(P) binding site [chemical binding]; other site 561230006966 homodimer interface [polypeptide binding]; other site 561230006967 homotetramer interface [polypeptide binding]; other site 561230006968 active site 561230006969 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 561230006970 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 561230006971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230006972 homodimer interface [polypeptide binding]; other site 561230006973 catalytic residue [active] 561230006974 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 561230006975 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 561230006976 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 561230006977 active site 561230006978 motif I; other site 561230006979 motif II; other site 561230006980 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 561230006981 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 561230006982 aromatic amino acid exporter; Provisional; Region: PRK11689 561230006983 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 561230006984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230006985 catalytic residue [active] 561230006986 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 561230006987 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 561230006988 inhibitor-cofactor binding pocket; inhibition site 561230006989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230006990 catalytic residue [active] 561230006991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 561230006992 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 561230006993 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 561230006994 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 561230006995 H+ Antiporter protein; Region: 2A0121; TIGR00900 561230006996 putative substrate translocation pore; other site 561230006997 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561230006998 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 561230006999 catalytic site [active] 561230007000 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 561230007001 Protein of unknown function (DUF4427); Region: DUF4427; pfam14468 561230007002 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 561230007003 phage assembly protein; Region: IV; PHA00019 561230007004 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561230007005 Zonular occludens toxin (Zot); Region: Zot; cl17485 561230007006 PPP4R2; Region: PPP4R2; pfam09184 561230007007 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 561230007008 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 561230007009 hypothetical protein; Provisional; Region: PRK10515 561230007010 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 561230007011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230007012 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 561230007013 dimerization interface [polypeptide binding]; other site 561230007014 Cache domain; Region: Cache_1; pfam02743 561230007015 HAMP domain; Region: HAMP; pfam00672 561230007016 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561230007017 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230007018 dimer interface [polypeptide binding]; other site 561230007019 putative CheW interface [polypeptide binding]; other site 561230007020 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230007021 Coenzyme A binding pocket [chemical binding]; other site 561230007022 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 561230007023 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230007024 putative substrate translocation pore; other site 561230007025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 561230007026 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230007027 Cytochrome b562; Region: Cytochrom_B562; pfam07361 561230007028 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 561230007029 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 561230007030 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 561230007031 Virulence factor SrfB; Region: SrfB; pfam07520 561230007032 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 561230007033 SnoaL-like domain; Region: SnoaL_2; pfam12680 561230007034 short chain dehydrogenase; Provisional; Region: PRK06101 561230007035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561230007036 NAD(P) binding site [chemical binding]; other site 561230007037 active site 561230007038 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 561230007039 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 561230007040 hydroxyglutarate oxidase; Provisional; Region: PRK11728 561230007041 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 561230007042 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 561230007043 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 561230007044 S-adenosylmethionine binding site [chemical binding]; other site 561230007045 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 561230007046 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 561230007047 E-class dimer interface [polypeptide binding]; other site 561230007048 P-class dimer interface [polypeptide binding]; other site 561230007049 active site 561230007050 Cu2+ binding site [ion binding]; other site 561230007051 Zn2+ binding site [ion binding]; other site 561230007052 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561230007053 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561230007054 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561230007055 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561230007056 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561230007057 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 561230007058 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 561230007059 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 561230007060 DNA binding site [nucleotide binding] 561230007061 active site 561230007062 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 561230007063 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 561230007064 ligand binding site [chemical binding]; other site 561230007065 flexible hinge region; other site 561230007066 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 561230007067 putative switch regulator; other site 561230007068 non-specific DNA interactions [nucleotide binding]; other site 561230007069 DNA binding site [nucleotide binding] 561230007070 sequence specific DNA binding site [nucleotide binding]; other site 561230007071 putative cAMP binding site [chemical binding]; other site 561230007072 universal stress protein UspE; Provisional; Region: PRK11175 561230007073 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 561230007074 Ligand Binding Site [chemical binding]; other site 561230007075 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 561230007076 Ligand Binding Site [chemical binding]; other site 561230007077 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 561230007078 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 561230007079 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 561230007080 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 561230007081 ligand binding site [chemical binding]; other site 561230007082 homodimer interface [polypeptide binding]; other site 561230007083 NAD(P) binding site [chemical binding]; other site 561230007084 trimer interface B [polypeptide binding]; other site 561230007085 trimer interface A [polypeptide binding]; other site 561230007086 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 561230007087 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561230007088 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561230007089 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561230007090 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 561230007091 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561230007092 hypothetical protein; Provisional; Region: PRK10941 561230007093 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 561230007094 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 561230007095 binding surface 561230007096 TPR motif; other site 561230007097 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 561230007098 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 561230007099 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 561230007100 peptide chain release factor 1; Validated; Region: prfA; PRK00591 561230007101 This domain is found in peptide chain release factors; Region: PCRF; smart00937 561230007102 RF-1 domain; Region: RF-1; pfam00472 561230007103 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 561230007104 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 561230007105 tRNA; other site 561230007106 putative tRNA binding site [nucleotide binding]; other site 561230007107 putative NADP binding site [chemical binding]; other site 561230007108 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 561230007109 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 561230007110 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 561230007111 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 561230007112 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 561230007113 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 561230007114 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 561230007115 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 561230007116 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561230007117 active site 561230007118 hypothetical protein; Provisional; Region: PRK10692 561230007119 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 561230007120 putative active site [active] 561230007121 catalytic residue [active] 561230007122 GTP-binding protein YchF; Reviewed; Region: PRK09601 561230007123 YchF GTPase; Region: YchF; cd01900 561230007124 G1 box; other site 561230007125 GTP/Mg2+ binding site [chemical binding]; other site 561230007126 Switch I region; other site 561230007127 G2 box; other site 561230007128 Switch II region; other site 561230007129 G3 box; other site 561230007130 G4 box; other site 561230007131 G5 box; other site 561230007132 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 561230007133 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561230007134 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 561230007135 dimer interface [polypeptide binding]; other site 561230007136 conserved gate region; other site 561230007137 putative PBP binding loops; other site 561230007138 ABC-ATPase subunit interface; other site 561230007139 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561230007140 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 561230007141 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 561230007142 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 561230007143 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 561230007144 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 561230007145 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 561230007146 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 561230007147 putative metal dependent hydrolase; Provisional; Region: PRK11598 561230007148 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 561230007149 Sulfatase; Region: Sulfatase; pfam00884 561230007150 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 561230007151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230007152 active site 561230007153 phosphorylation site [posttranslational modification] 561230007154 intermolecular recognition site; other site 561230007155 dimerization interface [polypeptide binding]; other site 561230007156 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 561230007157 DNA binding site [nucleotide binding] 561230007158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561230007159 HAMP domain; Region: HAMP; pfam00672 561230007160 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 561230007161 dimer interface [polypeptide binding]; other site 561230007162 phosphorylation site [posttranslational modification] 561230007163 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 561230007164 ATP binding site [chemical binding]; other site 561230007165 Mg2+ binding site [ion binding]; other site 561230007166 G-X-G motif; other site 561230007167 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 561230007168 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 561230007169 RNA ligase; Region: RNA_ligase; pfam09414 561230007170 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561230007171 Zn2+ binding site [ion binding]; other site 561230007172 Mg2+ binding site [ion binding]; other site 561230007173 AAA domain; Region: AAA_33; pfam13671 561230007174 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 561230007175 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 561230007176 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 561230007177 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 561230007178 active site 561230007179 metal binding site [ion binding]; metal-binding site 561230007180 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561230007181 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 561230007182 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 561230007183 active site 561230007184 HNH endonuclease; Region: HNH_2; pfam13391 561230007185 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 561230007186 beta-galactosidase; Region: BGL; TIGR03356 561230007187 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 561230007188 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 561230007189 active site turn [active] 561230007190 phosphorylation site [posttranslational modification] 561230007191 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 561230007192 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230007193 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230007194 DNA binding site [nucleotide binding] 561230007195 domain linker motif; other site 561230007196 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 561230007197 dimerization interface (closed form) [polypeptide binding]; other site 561230007198 ligand binding site [chemical binding]; other site 561230007199 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 561230007200 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 561230007201 metal binding site [ion binding]; metal-binding site 561230007202 Autotransporter beta-domain; Region: Autotransporter; cl17461 561230007203 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 561230007204 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 561230007205 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 561230007206 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 561230007207 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 561230007208 metal binding site [ion binding]; metal-binding site 561230007209 dimer interface [polypeptide binding]; other site 561230007210 Flavin Reductases; Region: FlaRed; cl00801 561230007211 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 561230007212 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 561230007213 active site 561230007214 non-prolyl cis peptide bond; other site 561230007215 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 561230007216 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561230007217 substrate binding pocket [chemical binding]; other site 561230007218 membrane-bound complex binding site; other site 561230007219 hinge residues; other site 561230007220 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 561230007221 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561230007222 substrate binding pocket [chemical binding]; other site 561230007223 membrane-bound complex binding site; other site 561230007224 hinge residues; other site 561230007225 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230007226 Coenzyme A binding pocket [chemical binding]; other site 561230007227 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 561230007228 dimer interface [polypeptide binding]; other site 561230007229 conserved gate region; other site 561230007230 putative PBP binding loops; other site 561230007231 ABC-ATPase subunit interface; other site 561230007232 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561230007233 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561230007234 Walker A/P-loop; other site 561230007235 ATP binding site [chemical binding]; other site 561230007236 Q-loop/lid; other site 561230007237 ABC transporter signature motif; other site 561230007238 Walker B; other site 561230007239 D-loop; other site 561230007240 H-loop/switch region; other site 561230007241 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 561230007242 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 561230007243 Walker A/P-loop; other site 561230007244 ATP binding site [chemical binding]; other site 561230007245 Q-loop/lid; other site 561230007246 ABC transporter signature motif; other site 561230007247 Walker B; other site 561230007248 D-loop; other site 561230007249 H-loop/switch region; other site 561230007250 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 561230007251 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 561230007252 Walker A/P-loop; other site 561230007253 ATP binding site [chemical binding]; other site 561230007254 Q-loop/lid; other site 561230007255 ABC transporter signature motif; other site 561230007256 Walker B; other site 561230007257 D-loop; other site 561230007258 H-loop/switch region; other site 561230007259 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 561230007260 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 561230007261 TM-ABC transporter signature motif; other site 561230007262 HEAT repeats; Region: HEAT_2; pfam13646 561230007263 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 561230007264 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230007265 TM-ABC transporter signature motif; other site 561230007266 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 561230007267 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 561230007268 putative ligand binding site [chemical binding]; other site 561230007269 Transcriptional regulators [Transcription]; Region: GntR; COG1802 561230007270 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230007271 DNA-binding site [nucleotide binding]; DNA binding site 561230007272 FCD domain; Region: FCD; pfam07729 561230007273 urea carboxylase; Region: urea_carbox; TIGR02712 561230007274 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561230007275 ATP-grasp domain; Region: ATP-grasp_4; cl17255 561230007276 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 561230007277 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 561230007278 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 561230007279 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 561230007280 carboxyltransferase (CT) interaction site; other site 561230007281 biotinylation site [posttranslational modification]; other site 561230007282 allophanate hydrolase; Provisional; Region: PRK08186 561230007283 Amidase; Region: Amidase; cl11426 561230007284 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561230007285 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561230007286 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561230007287 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 561230007288 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 561230007289 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 561230007290 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561230007291 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 561230007292 LysE type translocator; Region: LysE; cl00565 561230007293 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 561230007294 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230007295 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 561230007296 dimerization interface [polypeptide binding]; other site 561230007297 substrate binding pocket [chemical binding]; other site 561230007298 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561230007299 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 561230007300 catalytic site [active] 561230007301 potential frameshift: common BLAST hit: gi|50121046|ref|YP_050213.1| hemolysin/hemagglutinin-like protein HecA precursor 561230007302 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561230007303 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561230007304 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561230007305 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 561230007306 haemagglutination activity domain; Region: Haemagg_act; pfam05860 561230007307 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 561230007308 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 561230007309 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 561230007310 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 561230007311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230007312 DNA-binding site [nucleotide binding]; DNA binding site 561230007313 FCD domain; Region: FCD; pfam07729 561230007314 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 561230007315 Pathogenicity factor; Region: AvrE; pfam11725 561230007316 Pectate lyase; Region: Pectate_lyase; pfam03211 561230007317 PAAR motif; Region: PAAR_motif; pfam05488 561230007318 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 561230007319 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561230007320 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561230007321 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561230007322 HrpZ; Region: Hairpins; pfam04877 561230007323 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 561230007324 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561230007325 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561230007326 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561230007327 HrpF protein; Region: HrpF; pfam06266 561230007328 HrpE/YscL/FliH and V-type ATPase subunit E; Region: HrpE; pfam06188 561230007329 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 561230007330 Type III secretion needle MxiH like; Region: MxiH; pfam09392 561230007331 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 561230007332 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 561230007333 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 561230007334 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 561230007335 Walker A motif; other site 561230007336 ATP binding site [chemical binding]; other site 561230007337 Walker B motif; other site 561230007338 arginine finger; other site 561230007339 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 561230007340 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 561230007341 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230007342 active site 561230007343 phosphorylation site [posttranslational modification] 561230007344 intermolecular recognition site; other site 561230007345 dimerization interface [polypeptide binding]; other site 561230007346 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 561230007347 DNA binding residues [nucleotide binding] 561230007348 dimerization interface [polypeptide binding]; other site 561230007349 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 561230007350 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 561230007351 putative active site [active] 561230007352 heme pocket [chemical binding]; other site 561230007353 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 561230007354 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 561230007355 putative active site [active] 561230007356 heme pocket [chemical binding]; other site 561230007357 Histidine kinase; Region: HisKA_3; pfam07730 561230007358 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 561230007359 ATP binding site [chemical binding]; other site 561230007360 Mg2+ binding site [ion binding]; other site 561230007361 G-X-G motif; other site 561230007362 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 561230007363 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230007364 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 561230007365 DNA binding residues [nucleotide binding] 561230007366 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 561230007367 TyeA; Region: TyeA; cl07611 561230007368 type III secretion protein, HrcV family; Region: hrcV; TIGR01399 561230007369 FHIPEP family; Region: FHIPEP; pfam00771 561230007370 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 561230007371 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 561230007372 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 561230007373 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 561230007374 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 561230007375 Walker A motif; other site 561230007376 ATP binding site [chemical binding]; other site 561230007377 Walker B motif; other site 561230007378 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 561230007379 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 561230007380 type III secretion system protein YscR; Provisional; Region: PRK12797 561230007381 type III secretion protein, HrpO family; Region: fliQ_rel_III; TIGR01403 561230007382 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 561230007383 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 561230007384 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 561230007385 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230007386 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230007387 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 561230007388 dimerization interface [polypeptide binding]; other site 561230007389 hypothetical protein; Provisional; Region: PRK07079 561230007390 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 561230007391 metal binding site [ion binding]; metal-binding site 561230007392 putative dimer interface [polypeptide binding]; other site 561230007393 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 561230007394 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 561230007395 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 561230007396 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 561230007397 active site 561230007398 octamer interface [polypeptide binding]; other site 561230007399 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 561230007400 dimer interface [polypeptide binding]; other site 561230007401 conserved gate region; other site 561230007402 ABC-ATPase subunit interface; other site 561230007403 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 561230007404 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 561230007405 Walker A/P-loop; other site 561230007406 ATP binding site [chemical binding]; other site 561230007407 Q-loop/lid; other site 561230007408 ABC transporter signature motif; other site 561230007409 Walker B; other site 561230007410 D-loop; other site 561230007411 H-loop/switch region; other site 561230007412 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230007413 NIL domain; Region: NIL; pfam09383 561230007414 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 561230007415 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 561230007416 active site 561230007417 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230007418 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 561230007419 dimerization interface [polypeptide binding]; other site 561230007420 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230007421 dimer interface [polypeptide binding]; other site 561230007422 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561230007423 putative CheW interface [polypeptide binding]; other site 561230007424 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 561230007425 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 561230007426 inhibitor-cofactor binding pocket; inhibition site 561230007427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230007428 catalytic residue [active] 561230007429 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 561230007430 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 561230007431 active site 561230007432 ATP binding site [chemical binding]; other site 561230007433 substrate binding site [chemical binding]; other site 561230007434 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 561230007435 classical (c) SDRs; Region: SDR_c; cd05233 561230007436 NAD(P) binding site [chemical binding]; other site 561230007437 active site 561230007438 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561230007439 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 561230007440 dimer interface [polypeptide binding]; other site 561230007441 conserved gate region; other site 561230007442 putative PBP binding loops; other site 561230007443 ABC-ATPase subunit interface; other site 561230007444 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 561230007445 dimer interface [polypeptide binding]; other site 561230007446 conserved gate region; other site 561230007447 putative PBP binding loops; other site 561230007448 ABC-ATPase subunit interface; other site 561230007449 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 561230007450 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561230007451 succinic semialdehyde dehydrogenase; Region: PLN02278 561230007452 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 561230007453 tetramerization interface [polypeptide binding]; other site 561230007454 NAD(P) binding site [chemical binding]; other site 561230007455 catalytic residues [active] 561230007456 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 561230007457 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 561230007458 inhibitor-cofactor binding pocket; inhibition site 561230007459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230007460 catalytic residue [active] 561230007461 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 561230007462 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230007463 DNA-binding site [nucleotide binding]; DNA binding site 561230007464 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 561230007465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230007466 homodimer interface [polypeptide binding]; other site 561230007467 catalytic residue [active] 561230007468 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561230007469 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 561230007470 Walker A/P-loop; other site 561230007471 ATP binding site [chemical binding]; other site 561230007472 Q-loop/lid; other site 561230007473 ABC transporter signature motif; other site 561230007474 Walker B; other site 561230007475 D-loop; other site 561230007476 H-loop/switch region; other site 561230007477 TOBE domain; Region: TOBE_2; pfam08402 561230007478 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 561230007479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 561230007480 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 561230007481 active site 561230007482 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 561230007483 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 561230007484 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 561230007485 inhibitor-cofactor binding pocket; inhibition site 561230007486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230007487 catalytic residue [active] 561230007488 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 561230007489 extended (e) SDRs; Region: SDR_e; cd08946 561230007490 NAD(P) binding site [chemical binding]; other site 561230007491 active site 561230007492 substrate binding site [chemical binding]; other site 561230007493 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 561230007494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561230007495 NAD(P) binding site [chemical binding]; other site 561230007496 active site 561230007497 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 561230007498 active site 561230007499 iron coordination sites [ion binding]; other site 561230007500 substrate binding pocket [chemical binding]; other site 561230007501 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 561230007502 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 561230007503 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 561230007504 inhibitor-cofactor binding pocket; inhibition site 561230007505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230007506 catalytic residue [active] 561230007507 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 561230007508 AAA domain; Region: AAA_17; pfam13207 561230007509 AAA domain; Region: AAA_18; pfam13238 561230007510 hypothetical protein; Provisional; Region: PRK10457 561230007511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 561230007512 YheO-like PAS domain; Region: PAS_6; pfam08348 561230007513 HTH domain; Region: HTH_22; pfam13309 561230007514 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 561230007515 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 561230007516 tetramer interface [polypeptide binding]; other site 561230007517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230007518 catalytic residue [active] 561230007519 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 561230007520 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 561230007521 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 561230007522 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 561230007523 dimer interface [polypeptide binding]; other site 561230007524 active site 561230007525 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561230007526 substrate binding site [chemical binding]; other site 561230007527 catalytic residue [active] 561230007528 OsmC-like protein; Region: OsmC; cl00767 561230007529 MarR family; Region: MarR_2; cl17246 561230007530 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561230007531 EamA-like transporter family; Region: EamA; pfam00892 561230007532 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 561230007533 EamA-like transporter family; Region: EamA; pfam00892 561230007534 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 561230007535 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 561230007536 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 561230007537 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 561230007538 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 561230007539 [4Fe-4S] binding site [ion binding]; other site 561230007540 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 561230007541 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 561230007542 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 561230007543 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 561230007544 molybdopterin cofactor binding site; other site 561230007545 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 561230007546 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 561230007547 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 561230007548 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 561230007549 dimerization interface [polypeptide binding]; other site 561230007550 Histidine kinase; Region: HisKA_3; pfam07730 561230007551 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 561230007552 ATP binding site [chemical binding]; other site 561230007553 Mg2+ binding site [ion binding]; other site 561230007554 G-X-G motif; other site 561230007555 transcriptional regulator NarL; Provisional; Region: PRK10651 561230007556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230007557 active site 561230007558 phosphorylation site [posttranslational modification] 561230007559 intermolecular recognition site; other site 561230007560 dimerization interface [polypeptide binding]; other site 561230007561 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 561230007562 DNA binding residues [nucleotide binding] 561230007563 dimerization interface [polypeptide binding]; other site 561230007564 Acyltransferase family; Region: Acyl_transf_3; pfam01757 561230007565 Protein of unknown function, DUF481; Region: DUF481; pfam04338 561230007566 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 561230007567 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 561230007568 putative active site pocket [active] 561230007569 dimerization interface [polypeptide binding]; other site 561230007570 putative catalytic residue [active] 561230007571 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 561230007572 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 561230007573 FAD binding pocket [chemical binding]; other site 561230007574 FAD binding motif [chemical binding]; other site 561230007575 phosphate binding motif [ion binding]; other site 561230007576 NAD binding pocket [chemical binding]; other site 561230007577 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 561230007578 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 561230007579 putative transporter; Provisional; Region: PRK11660 561230007580 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 561230007581 Sulfate transporter family; Region: Sulfate_transp; pfam00916 561230007582 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 561230007583 dihydromonapterin reductase; Provisional; Region: PRK06483 561230007584 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 561230007585 NADP binding site [chemical binding]; other site 561230007586 substrate binding pocket [chemical binding]; other site 561230007587 active site 561230007588 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 561230007589 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230007590 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 561230007591 DNA binding residues [nucleotide binding] 561230007592 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 561230007593 YceI-like domain; Region: YceI; pfam04264 561230007594 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 561230007595 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230007596 active site 561230007597 phosphorylation site [posttranslational modification] 561230007598 intermolecular recognition site; other site 561230007599 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 561230007600 DNA binding site [nucleotide binding] 561230007601 sensor protein RstB; Provisional; Region: PRK10604 561230007602 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 561230007603 dimerization interface [polypeptide binding]; other site 561230007604 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 561230007605 dimer interface [polypeptide binding]; other site 561230007606 phosphorylation site [posttranslational modification] 561230007607 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 561230007608 ATP binding site [chemical binding]; other site 561230007609 Mg2+ binding site [ion binding]; other site 561230007610 G-X-G motif; other site 561230007611 acid shock protein precursor; Provisional; Region: PRK03577 561230007612 Fimbrial protein; Region: Fimbrial; cl01416 561230007613 Fimbrial protein; Region: Fimbrial; cl01416 561230007614 outer membrane usher protein; Provisional; Region: PRK15193 561230007615 PapC N-terminal domain; Region: PapC_N; pfam13954 561230007616 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 561230007617 PapC C-terminal domain; Region: PapC_C; pfam13953 561230007618 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 561230007619 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 561230007620 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 561230007621 Fimbrial protein; Region: Fimbrial; cl01416 561230007622 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 561230007623 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 561230007624 GAF domain; Region: GAF; pfam01590 561230007625 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230007626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230007627 metal binding site [ion binding]; metal-binding site 561230007628 active site 561230007629 I-site; other site 561230007630 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 561230007631 EcsC protein family; Region: EcsC; pfam12787 561230007632 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 561230007633 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 561230007634 ATP binding site [chemical binding]; other site 561230007635 putative Mg++ binding site [ion binding]; other site 561230007636 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 561230007637 nucleotide binding region [chemical binding]; other site 561230007638 ATP-binding site [chemical binding]; other site 561230007639 Helicase associated domain (HA2); Region: HA2; pfam04408 561230007640 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 561230007641 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 561230007642 azoreductase; Reviewed; Region: PRK00170 561230007643 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561230007644 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 561230007645 hypothetical protein; Provisional; Region: PRK10695 561230007646 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 561230007647 PAS domain; Region: PAS_9; pfam13426 561230007648 putative active site [active] 561230007649 heme pocket [chemical binding]; other site 561230007650 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 561230007651 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561230007652 HAMP domain; Region: HAMP; pfam00672 561230007653 dimerization interface [polypeptide binding]; other site 561230007654 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230007655 dimer interface [polypeptide binding]; other site 561230007656 putative CheW interface [polypeptide binding]; other site 561230007657 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 561230007658 PAS domain; Region: PAS_9; pfam13426 561230007659 putative active site [active] 561230007660 heme pocket [chemical binding]; other site 561230007661 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 561230007662 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561230007663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230007664 dimer interface [polypeptide binding]; other site 561230007665 putative CheW interface [polypeptide binding]; other site 561230007666 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 561230007667 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 561230007668 putative ligand binding site [chemical binding]; other site 561230007669 putative NAD binding site [chemical binding]; other site 561230007670 catalytic site [active] 561230007671 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 561230007672 Domain of unknown function (DUF333); Region: DUF333; pfam03891 561230007673 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 561230007674 catalytic loop [active] 561230007675 iron binding site [ion binding]; other site 561230007676 Transposase; Region: HTH_Tnp_1; pfam01527 561230007677 YebF-like protein; Region: YebF; pfam13995 561230007678 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 561230007679 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 561230007680 catalytic loop [active] 561230007681 iron binding site [ion binding]; other site 561230007682 uncharacterized phage protein; Region: phage_xxxx; TIGR02642 561230007683 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 561230007684 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 561230007685 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 561230007686 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 561230007687 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 561230007688 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 561230007689 Int/Topo IB signature motif; other site 561230007690 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 561230007691 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 561230007692 Ligand Binding Site [chemical binding]; other site 561230007693 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 561230007694 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 561230007695 Cl binding site [ion binding]; other site 561230007696 oligomer interface [polypeptide binding]; other site 561230007697 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 561230007698 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 561230007699 peptide binding site [polypeptide binding]; other site 561230007700 murein peptide amidase A; Provisional; Region: PRK10602 561230007701 active site 561230007702 Zn binding site [ion binding]; other site 561230007703 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 561230007704 dimer interface [polypeptide binding]; other site 561230007705 catalytic triad [active] 561230007706 peroxidatic and resolving cysteines [active] 561230007707 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 561230007708 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 561230007709 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 561230007710 putative aromatic amino acid binding site; other site 561230007711 PAS domain; Region: PAS; smart00091 561230007712 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 561230007713 Walker A motif; other site 561230007714 ATP binding site [chemical binding]; other site 561230007715 Walker B motif; other site 561230007716 arginine finger; other site 561230007717 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_1; cd05678 561230007718 hypothetical protein; Provisional; Region: PRK08201 561230007719 putative metal binding site [ion binding]; other site 561230007720 putative dimer interface [polypeptide binding]; other site 561230007721 hypothetical protein; Provisional; Region: PRK05415 561230007722 Domain of unknown function (DUF697); Region: DUF697; cl12064 561230007723 Predicted ATPase [General function prediction only]; Region: COG3106 561230007724 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 561230007725 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 561230007726 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 561230007727 RTX toxin acyltransferase family; Region: HlyC; pfam02794 561230007728 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 561230007729 haemagglutination activity domain; Region: Haemagg_act; pfam05860 561230007730 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 561230007731 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561230007732 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561230007733 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561230007734 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561230007735 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 561230007736 phage shock protein C; Region: phageshock_pspC; TIGR02978 561230007737 phage shock protein B; Provisional; Region: pspB; PRK09458 561230007738 phage shock protein PspA; Provisional; Region: PRK10698 561230007739 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 561230007740 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 561230007741 Walker A motif; other site 561230007742 ATP binding site [chemical binding]; other site 561230007743 Walker B motif; other site 561230007744 arginine finger; other site 561230007745 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 561230007746 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 561230007747 Cellulose binding domain; Region: CBM_3; pfam00942 561230007748 2-isopropylmalate synthase; Validated; Region: PRK03739 561230007749 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 561230007750 active site 561230007751 catalytic residues [active] 561230007752 metal binding site [ion binding]; metal-binding site 561230007753 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 561230007754 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 561230007755 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561230007756 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230007757 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230007758 RES domain; Region: RES; pfam08808 561230007759 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 561230007760 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 561230007761 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 561230007762 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 561230007763 peptide binding site [polypeptide binding]; other site 561230007764 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 561230007765 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 561230007766 putative PBP binding loops; other site 561230007767 dimer interface [polypeptide binding]; other site 561230007768 ABC-ATPase subunit interface; other site 561230007769 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 561230007770 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 561230007771 dimer interface [polypeptide binding]; other site 561230007772 conserved gate region; other site 561230007773 putative PBP binding loops; other site 561230007774 ABC-ATPase subunit interface; other site 561230007775 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 561230007776 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230007777 Walker A/P-loop; other site 561230007778 ATP binding site [chemical binding]; other site 561230007779 Q-loop/lid; other site 561230007780 ABC transporter signature motif; other site 561230007781 Walker B; other site 561230007782 D-loop; other site 561230007783 H-loop/switch region; other site 561230007784 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230007785 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 561230007786 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230007787 Walker A/P-loop; other site 561230007788 ATP binding site [chemical binding]; other site 561230007789 Q-loop/lid; other site 561230007790 ABC transporter signature motif; other site 561230007791 Walker B; other site 561230007792 D-loop; other site 561230007793 H-loop/switch region; other site 561230007794 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230007795 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 561230007796 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 561230007797 NAD binding site [chemical binding]; other site 561230007798 homotetramer interface [polypeptide binding]; other site 561230007799 homodimer interface [polypeptide binding]; other site 561230007800 substrate binding site [chemical binding]; other site 561230007801 active site 561230007802 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 561230007803 ApbE family; Region: ApbE; pfam02424 561230007804 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 561230007805 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 561230007806 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 561230007807 putative active site [active] 561230007808 putative catalytic site [active] 561230007809 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 561230007810 D-galactonate transporter; Region: 2A0114; TIGR00893 561230007811 putative substrate translocation pore; other site 561230007812 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230007813 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230007814 DNA binding site [nucleotide binding] 561230007815 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 561230007816 ligand binding site [chemical binding]; other site 561230007817 dimerization interface [polypeptide binding]; other site 561230007818 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230007819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230007820 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 561230007821 dimerization interface [polypeptide binding]; other site 561230007822 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 561230007823 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 561230007824 putative molybdopterin cofactor binding site [chemical binding]; other site 561230007825 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 561230007826 putative molybdopterin cofactor binding site; other site 561230007827 exoribonuclease II; Provisional; Region: PRK05054 561230007828 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 561230007829 RNB domain; Region: RNB; pfam00773 561230007830 S1 RNA binding domain; Region: S1; pfam00575 561230007831 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 561230007832 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561230007833 active site 561230007834 catalytic tetrad [active] 561230007835 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 561230007836 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 561230007837 putative DNA binding site [nucleotide binding]; other site 561230007838 putative Zn2+ binding site [ion binding]; other site 561230007839 AsnC family; Region: AsnC_trans_reg; pfam01037 561230007840 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561230007841 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 561230007842 putative substrate translocation pore; other site 561230007843 carbon starvation protein A; Provisional; Region: PRK15015 561230007844 Carbon starvation protein CstA; Region: CstA; pfam02554 561230007845 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 561230007846 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 561230007847 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 561230007848 intersubunit interface [polypeptide binding]; other site 561230007849 active site 561230007850 Zn2+ binding site [ion binding]; other site 561230007851 lipoprotein; Provisional; Region: PRK10540 561230007852 translation initiation factor Sui1; Validated; Region: PRK06824 561230007853 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 561230007854 putative rRNA binding site [nucleotide binding]; other site 561230007855 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 561230007856 active site 561230007857 dimer interface [polypeptide binding]; other site 561230007858 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 561230007859 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 561230007860 catalytic Zn binding site [ion binding]; other site 561230007861 structural Zn binding site [ion binding]; other site 561230007862 NAD(P) binding site [chemical binding]; other site 561230007863 tetratricopeptide repeat protein; Provisional; Region: PRK11788 561230007864 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 561230007865 TPR motif; other site 561230007866 binding surface 561230007867 Predicted membrane protein [Function unknown]; Region: COG3771 561230007868 MarR family; Region: MarR_2; pfam12802 561230007869 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 561230007870 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 561230007871 active site 561230007872 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 561230007873 dimerization interface [polypeptide binding]; other site 561230007874 active site 561230007875 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 561230007876 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 561230007877 peptide binding site [polypeptide binding]; other site 561230007878 aconitate hydratase; Validated; Region: PRK09277 561230007879 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 561230007880 substrate binding site [chemical binding]; other site 561230007881 ligand binding site [chemical binding]; other site 561230007882 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 561230007883 substrate binding site [chemical binding]; other site 561230007884 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 561230007885 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561230007886 glutathionine S-transferase; Provisional; Region: PRK10542 561230007887 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 561230007888 C-terminal domain interface [polypeptide binding]; other site 561230007889 GSH binding site (G-site) [chemical binding]; other site 561230007890 dimer interface [polypeptide binding]; other site 561230007891 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 561230007892 dimer interface [polypeptide binding]; other site 561230007893 N-terminal domain interface [polypeptide binding]; other site 561230007894 substrate binding pocket (H-site) [chemical binding]; other site 561230007895 pyridoxamine kinase; Validated; Region: PRK05756 561230007896 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 561230007897 dimer interface [polypeptide binding]; other site 561230007898 pyridoxal binding site [chemical binding]; other site 561230007899 ATP binding site [chemical binding]; other site 561230007900 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 561230007901 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 561230007902 active site 561230007903 HIGH motif; other site 561230007904 dimer interface [polypeptide binding]; other site 561230007905 KMSKS motif; other site 561230007906 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 561230007907 RNA binding surface [nucleotide binding]; other site 561230007908 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 561230007909 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 561230007910 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 561230007911 lysozyme inhibitor; Provisional; Region: PRK11372 561230007912 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 561230007913 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 561230007914 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 561230007915 transcriptional regulator SlyA; Provisional; Region: PRK03573 561230007916 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 561230007917 Predicted Fe-S protein [General function prediction only]; Region: COG3313 561230007918 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561230007919 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 561230007920 dimer interface [polypeptide binding]; other site 561230007921 active site 561230007922 metal binding site [ion binding]; metal-binding site 561230007923 glutathione binding site [chemical binding]; other site 561230007924 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 561230007925 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 561230007926 dimer interface [polypeptide binding]; other site 561230007927 catalytic site [active] 561230007928 putative active site [active] 561230007929 putative substrate binding site [chemical binding]; other site 561230007930 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 561230007931 putative GSH binding site [chemical binding]; other site 561230007932 catalytic residues [active] 561230007933 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 561230007934 NlpC/P60 family; Region: NLPC_P60; pfam00877 561230007935 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 561230007936 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230007937 DNA binding site [nucleotide binding] 561230007938 domain linker motif; other site 561230007939 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 561230007940 dimerization interface [polypeptide binding]; other site 561230007941 ligand binding site [chemical binding]; other site 561230007942 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 561230007943 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 561230007944 S-adenosylmethionine binding site [chemical binding]; other site 561230007945 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 561230007946 Lumazine binding domain; Region: Lum_binding; pfam00677 561230007947 Lumazine binding domain; Region: Lum_binding; pfam00677 561230007948 multidrug efflux protein; Reviewed; Region: PRK01766 561230007949 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 561230007950 cation binding site [ion binding]; other site 561230007951 urea carboxylase; Region: urea_carbox; TIGR02712 561230007952 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561230007953 ATP-grasp domain; Region: ATP-grasp_4; cl17255 561230007954 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 561230007955 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 561230007956 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 561230007957 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 561230007958 carboxyltransferase (CT) interaction site; other site 561230007959 biotinylation site [posttranslational modification]; other site 561230007960 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 561230007961 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 561230007962 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 561230007963 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 561230007964 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561230007965 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561230007966 Walker A/P-loop; other site 561230007967 ATP binding site [chemical binding]; other site 561230007968 Q-loop/lid; other site 561230007969 ABC transporter signature motif; other site 561230007970 Walker B; other site 561230007971 D-loop; other site 561230007972 H-loop/switch region; other site 561230007973 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 561230007974 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561230007975 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 561230007976 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561230007977 MarR family; Region: MarR_2; cl17246 561230007978 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 561230007979 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 561230007980 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 561230007981 dimer interface [polypeptide binding]; other site 561230007982 active site 561230007983 heme binding site [chemical binding]; other site 561230007984 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 561230007985 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 561230007986 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561230007987 putative active site [active] 561230007988 putative metal binding site [ion binding]; other site 561230007989 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561230007990 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 561230007991 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561230007992 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 561230007993 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 561230007994 active site 561230007995 motif I; other site 561230007996 motif II; other site 561230007997 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561230007998 transcriptional regulator NarP; Provisional; Region: PRK10403 561230007999 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230008000 active site 561230008001 phosphorylation site [posttranslational modification] 561230008002 intermolecular recognition site; other site 561230008003 dimerization interface [polypeptide binding]; other site 561230008004 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 561230008005 DNA binding residues [nucleotide binding] 561230008006 dimerization interface [polypeptide binding]; other site 561230008007 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 561230008008 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 561230008009 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 561230008010 dimerization interface [polypeptide binding]; other site 561230008011 Histidine kinase; Region: HisKA_3; pfam07730 561230008012 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 561230008013 ATP binding site [chemical binding]; other site 561230008014 Mg2+ binding site [ion binding]; other site 561230008015 G-X-G motif; other site 561230008016 ferredoxin-type protein; Provisional; Region: PRK10194 561230008017 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 561230008018 4Fe-4S binding domain; Region: Fer4; cl02805 561230008019 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 561230008020 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 561230008021 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 561230008022 [4Fe-4S] binding site [ion binding]; other site 561230008023 molybdopterin cofactor binding site; other site 561230008024 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 561230008025 molybdopterin cofactor binding site; other site 561230008026 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 561230008027 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 561230008028 4Fe-4S binding domain; Region: Fer4_5; pfam12801 561230008029 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 561230008030 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 561230008031 cytochrome c-type protein NapC; Provisional; Region: PRK10617 561230008032 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 561230008033 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 561230008034 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 561230008035 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 561230008036 binding surface 561230008037 TPR motif; other site 561230008038 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 561230008039 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 561230008040 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 561230008041 catalytic residues [active] 561230008042 central insert; other site 561230008043 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 561230008044 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 561230008045 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 561230008046 heme exporter protein CcmC; Region: ccmC; TIGR01191 561230008047 heme exporter protein CcmB; Region: ccmB; TIGR01190 561230008048 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 561230008049 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 561230008050 Walker A/P-loop; other site 561230008051 ATP binding site [chemical binding]; other site 561230008052 Q-loop/lid; other site 561230008053 ABC transporter signature motif; other site 561230008054 Walker B; other site 561230008055 D-loop; other site 561230008056 H-loop/switch region; other site 561230008057 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 561230008058 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 561230008059 binding surface 561230008060 TPR motif; other site 561230008061 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 561230008062 heme lyase subunit NrfE; Provisional; Region: PRK10369 561230008063 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 561230008064 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 561230008065 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 561230008066 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 561230008067 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 561230008068 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 561230008069 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 561230008070 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 561230008071 Sulfatase; Region: Sulfatase; cl17466 561230008072 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 561230008073 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 561230008074 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 561230008075 FeS/SAM binding site; other site 561230008076 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 561230008077 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 561230008078 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 561230008079 trimer interface; other site 561230008080 sugar binding site [chemical binding]; other site 561230008081 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 561230008082 beta-galactosidase; Region: BGL; TIGR03356 561230008083 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 561230008084 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 561230008085 active site turn [active] 561230008086 phosphorylation site [posttranslational modification] 561230008087 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561230008088 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 561230008089 HPr interaction site; other site 561230008090 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561230008091 active site 561230008092 phosphorylation site [posttranslational modification] 561230008093 transcriptional antiterminator BglG; Provisional; Region: PRK09772 561230008094 CAT RNA binding domain; Region: CAT_RBD; smart01061 561230008095 PRD domain; Region: PRD; pfam00874 561230008096 PRD domain; Region: PRD; pfam00874 561230008097 pyruvate kinase; Provisional; Region: PRK09206 561230008098 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 561230008099 domain interfaces; other site 561230008100 active site 561230008101 murein lipoprotein; Provisional; Region: PRK15396 561230008102 L,D-transpeptidase; Provisional; Region: PRK10190 561230008103 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 561230008104 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 561230008105 cysteine desufuration protein SufE; Provisional; Region: PRK09296 561230008106 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 561230008107 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 561230008108 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230008109 catalytic residue [active] 561230008110 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 561230008111 FeS assembly protein SufD; Region: sufD; TIGR01981 561230008112 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 561230008113 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 561230008114 Walker A/P-loop; other site 561230008115 ATP binding site [chemical binding]; other site 561230008116 Q-loop/lid; other site 561230008117 ABC transporter signature motif; other site 561230008118 Walker B; other site 561230008119 D-loop; other site 561230008120 H-loop/switch region; other site 561230008121 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 561230008122 putative ABC transporter; Region: ycf24; CHL00085 561230008123 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 561230008124 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 561230008125 CoenzymeA binding site [chemical binding]; other site 561230008126 subunit interaction site [polypeptide binding]; other site 561230008127 PHB binding site; other site 561230008128 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 561230008129 FAD binding domain; Region: FAD_binding_4; pfam01565 561230008130 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 561230008131 putative inner membrane protein; Provisional; Region: PRK10983 561230008132 Domain of unknown function DUF20; Region: UPF0118; pfam01594 561230008133 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 561230008134 ApbE family; Region: ApbE; pfam02424 561230008135 phosphoenolpyruvate synthase; Validated; Region: PRK06464 561230008136 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 561230008137 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 561230008138 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 561230008139 PEP synthetase regulatory protein; Provisional; Region: PRK05339 561230008140 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 561230008141 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561230008142 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 561230008143 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 561230008144 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 561230008145 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 561230008146 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 561230008147 putative hemin binding site; other site 561230008148 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561230008149 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 561230008150 ABC-ATPase subunit interface; other site 561230008151 dimer interface [polypeptide binding]; other site 561230008152 putative PBP binding regions; other site 561230008153 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 561230008154 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561230008155 Walker A/P-loop; other site 561230008156 ATP binding site [chemical binding]; other site 561230008157 Q-loop/lid; other site 561230008158 ABC transporter signature motif; other site 561230008159 Walker B; other site 561230008160 D-loop; other site 561230008161 H-loop/switch region; other site 561230008162 hypothetical protein; Validated; Region: PRK00029 561230008163 Uncharacterized conserved protein [Function unknown]; Region: COG0397 561230008164 EAL domain; Region: EAL; pfam00563 561230008165 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 561230008166 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 561230008167 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 561230008168 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 561230008169 NlpC/P60 family; Region: NLPC_P60; pfam00877 561230008170 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 561230008171 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561230008172 Walker A/P-loop; other site 561230008173 ATP binding site [chemical binding]; other site 561230008174 Q-loop/lid; other site 561230008175 ABC transporter signature motif; other site 561230008176 Walker B; other site 561230008177 D-loop; other site 561230008178 H-loop/switch region; other site 561230008179 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 561230008180 catalytic residues [active] 561230008181 dimer interface [polypeptide binding]; other site 561230008182 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561230008183 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 561230008184 ABC-ATPase subunit interface; other site 561230008185 dimer interface [polypeptide binding]; other site 561230008186 putative PBP binding regions; other site 561230008187 Methyltransferase domain; Region: Methyltransf_31; pfam13847 561230008188 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 561230008189 S-adenosylmethionine binding site [chemical binding]; other site 561230008190 Cupin domain; Region: Cupin_2; cl17218 561230008191 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 561230008192 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 561230008193 ligand binding site [chemical binding]; other site 561230008194 flexible hinge region; other site 561230008195 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 561230008196 NAD-dependent deacetylase; Provisional; Region: PRK00481 561230008197 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 561230008198 NAD+ binding site [chemical binding]; other site 561230008199 substrate binding site [chemical binding]; other site 561230008200 Zn binding site [ion binding]; other site 561230008201 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 561230008202 fructokinase; Reviewed; Region: PRK09557 561230008203 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 561230008204 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561230008205 FtsX-like permease family; Region: FtsX; pfam02687 561230008206 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 561230008207 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561230008208 Walker A/P-loop; other site 561230008209 ATP binding site [chemical binding]; other site 561230008210 Q-loop/lid; other site 561230008211 ABC transporter signature motif; other site 561230008212 Walker B; other site 561230008213 D-loop; other site 561230008214 H-loop/switch region; other site 561230008215 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 561230008216 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561230008217 FtsX-like permease family; Region: FtsX; pfam02687 561230008218 transcription-repair coupling factor; Provisional; Region: PRK10689 561230008219 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 561230008220 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 561230008221 ATP binding site [chemical binding]; other site 561230008222 putative Mg++ binding site [ion binding]; other site 561230008223 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 561230008224 nucleotide binding region [chemical binding]; other site 561230008225 ATP-binding site [chemical binding]; other site 561230008226 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 561230008227 short chain dehydrogenase; Validated; Region: PRK06182 561230008228 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 561230008229 NADP binding site [chemical binding]; other site 561230008230 active site 561230008231 steroid binding site; other site 561230008232 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 561230008233 Helix-turn-helix domain; Region: HTH_18; pfam12833 561230008234 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230008235 putative chaperone; Provisional; Region: PRK11678 561230008236 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 561230008237 nucleotide binding site [chemical binding]; other site 561230008238 putative NEF/HSP70 interaction site [polypeptide binding]; other site 561230008239 SBD interface [polypeptide binding]; other site 561230008240 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561230008241 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230008242 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230008243 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 561230008244 putative substrate translocation pore; other site 561230008245 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561230008246 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 561230008247 putative substrate translocation pore; other site 561230008248 hypothetical protein; Provisional; Region: PRK11280 561230008249 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 561230008250 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230008251 hypothetical protein; Provisional; Region: PRK04940 561230008252 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 561230008253 beta-hexosaminidase; Provisional; Region: PRK05337 561230008254 thiamine kinase; Region: ycfN_thiK; TIGR02721 561230008255 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 561230008256 active site 561230008257 substrate binding site [chemical binding]; other site 561230008258 ATP binding site [chemical binding]; other site 561230008259 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 561230008260 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 561230008261 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 561230008262 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 561230008263 putative dimer interface [polypeptide binding]; other site 561230008264 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 561230008265 nucleotide binding site/active site [active] 561230008266 HIT family signature motif; other site 561230008267 catalytic residue [active] 561230008268 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 561230008269 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 561230008270 putative substrate translocation pore; other site 561230008271 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 561230008272 salt bridge; other site 561230008273 non-specific DNA binding site [nucleotide binding]; other site 561230008274 sequence-specific DNA binding site [nucleotide binding]; other site 561230008275 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 561230008276 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561230008277 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 561230008278 active site turn [active] 561230008279 phosphorylation site [posttranslational modification] 561230008280 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 561230008281 active site 561230008282 DNA polymerase III subunit delta'; Validated; Region: PRK07993 561230008283 DNA polymerase III subunit delta'; Validated; Region: PRK08485 561230008284 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 561230008285 thymidylate kinase; Validated; Region: tmk; PRK00698 561230008286 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 561230008287 TMP-binding site; other site 561230008288 ATP-binding site [chemical binding]; other site 561230008289 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 561230008290 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 561230008291 dimerization interface [polypeptide binding]; other site 561230008292 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 561230008293 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 561230008294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230008295 catalytic residue [active] 561230008296 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 561230008297 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 561230008298 dimer interface [polypeptide binding]; other site 561230008299 active site 561230008300 acyl carrier protein; Provisional; Region: acpP; PRK00982 561230008301 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 561230008302 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 561230008303 NAD(P) binding site [chemical binding]; other site 561230008304 homotetramer interface [polypeptide binding]; other site 561230008305 homodimer interface [polypeptide binding]; other site 561230008306 active site 561230008307 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 561230008308 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 561230008309 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 561230008310 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 561230008311 dimer interface [polypeptide binding]; other site 561230008312 active site 561230008313 CoA binding pocket [chemical binding]; other site 561230008314 putative phosphate acyltransferase; Provisional; Region: PRK05331 561230008315 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 561230008316 hypothetical protein; Provisional; Region: PRK11193 561230008317 Maf-like protein; Region: Maf; pfam02545 561230008318 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 561230008319 active site 561230008320 dimer interface [polypeptide binding]; other site 561230008321 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 561230008322 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 561230008323 RNA binding surface [nucleotide binding]; other site 561230008324 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 561230008325 active site 561230008326 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 561230008327 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 561230008328 homodimer interface [polypeptide binding]; other site 561230008329 oligonucleotide binding site [chemical binding]; other site 561230008330 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 561230008331 Uncharacterized conserved protein [Function unknown]; Region: COG1359 561230008332 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 561230008333 active site 561230008334 substrate binding pocket [chemical binding]; other site 561230008335 dimer interface [polypeptide binding]; other site 561230008336 DNA damage-inducible protein I; Provisional; Region: PRK10597 561230008337 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 561230008338 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 561230008339 hypothetical protein; Provisional; Region: PRK03757 561230008340 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 561230008341 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 561230008342 active site residue [active] 561230008343 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561230008344 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 561230008345 active site 561230008346 FMN binding site [chemical binding]; other site 561230008347 substrate binding site [chemical binding]; other site 561230008348 homotetramer interface [polypeptide binding]; other site 561230008349 catalytic residue [active] 561230008350 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 561230008351 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 561230008352 putative acyl-acceptor binding pocket; other site 561230008353 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 561230008354 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 561230008355 Ligand binding site; other site 561230008356 DXD motif; other site 561230008357 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 561230008358 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 561230008359 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 561230008360 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 561230008361 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 561230008362 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 561230008363 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230008364 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230008365 dimer interface [polypeptide binding]; other site 561230008366 putative CheW interface [polypeptide binding]; other site 561230008367 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 561230008368 Uncharacterized conserved protein [Function unknown]; Region: COG1683 561230008369 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 561230008370 Ligand Binding Site [chemical binding]; other site 561230008371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230008372 Coenzyme A binding pocket [chemical binding]; other site 561230008373 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 561230008374 Isochorismatase family; Region: Isochorismatase; pfam00857 561230008375 catalytic triad [active] 561230008376 conserved cis-peptide bond; other site 561230008377 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 561230008378 nudix motif; other site 561230008379 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 561230008380 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 561230008381 YccA-like proteins; Region: YccA_like; cd10433 561230008382 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 561230008383 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 561230008384 acylphosphatase; Provisional; Region: PRK14426 561230008385 heat shock protein HspQ; Provisional; Region: PRK14129 561230008386 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 561230008387 hypothetical protein; Provisional; Region: PRK03641 561230008388 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 561230008389 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 561230008390 active site 561230008391 dimer interfaces [polypeptide binding]; other site 561230008392 catalytic residues [active] 561230008393 DNA helicase IV; Provisional; Region: helD; PRK11054 561230008394 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 561230008395 Part of AAA domain; Region: AAA_19; pfam13245 561230008396 Family description; Region: UvrD_C_2; pfam13538 561230008397 Predicted membrane protein [Function unknown]; Region: COG3304 561230008398 Domain of unknown function (DUF307); Region: DUF307; pfam03733 561230008399 Domain of unknown function (DUF307); Region: DUF307; pfam03733 561230008400 TIGR01666 family membrane protein; Region: YCCS 561230008401 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 561230008402 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 561230008403 TfoX N-terminal domain; Region: TfoX_N; pfam04993 561230008404 TfoX C-terminal domain; Region: TfoX_C; pfam04994 561230008405 SOS cell division inhibitor; Provisional; Region: PRK10595 561230008406 outer membrane protein A; Reviewed; Region: PRK10808 561230008407 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 561230008408 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 561230008409 ligand binding site [chemical binding]; other site 561230008410 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 561230008411 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 561230008412 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 561230008413 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 561230008414 active site 1 [active] 561230008415 dimer interface [polypeptide binding]; other site 561230008416 active site 2 [active] 561230008417 Protein of unknown function (DUF533); Region: DUF533; pfam04391 561230008418 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 561230008419 putative metal binding site [ion binding]; other site 561230008420 choline dehydrogenase; Validated; Region: PRK02106 561230008421 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 561230008422 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 561230008423 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 561230008424 tetrameric interface [polypeptide binding]; other site 561230008425 NAD binding site [chemical binding]; other site 561230008426 catalytic residues [active] 561230008427 transcriptional regulator BetI; Validated; Region: PRK00767 561230008428 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230008429 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 561230008430 choline transport protein BetT; Provisional; Region: PRK09928 561230008431 hypothetical protein; Provisional; Region: PRK09273 561230008432 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 561230008433 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 561230008434 hypothetical protein; Provisional; Region: PRK10536 561230008435 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 561230008436 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 561230008437 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230008438 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 561230008439 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 561230008440 DNA binding residues [nucleotide binding] 561230008441 Methyltransferase domain; Region: Methyltransf_23; pfam13489 561230008442 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 561230008443 S-adenosylmethionine binding site [chemical binding]; other site 561230008444 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230008445 Coenzyme A binding pocket [chemical binding]; other site 561230008446 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 561230008447 active site 561230008448 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 561230008449 active site 561230008450 WbqC-like protein family; Region: WbqC; pfam08889 561230008451 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 561230008452 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 561230008453 inhibitor-cofactor binding pocket; inhibition site 561230008454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230008455 catalytic residue [active] 561230008456 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 561230008457 S-adenosylmethionine binding site [chemical binding]; other site 561230008458 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 561230008459 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 561230008460 TPR motif; other site 561230008461 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 561230008462 binding surface 561230008463 flagellin; Provisional; Region: PRK12802 561230008464 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 561230008465 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 561230008466 flagellar capping protein; Reviewed; Region: fliD; PRK08032 561230008467 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 561230008468 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 561230008469 flagellar protein FliS; Validated; Region: fliS; PRK05685 561230008470 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 561230008471 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 561230008472 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 561230008473 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 561230008474 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 561230008475 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 561230008476 FliG C-terminal domain; Region: FliG_C; pfam01706 561230008477 flagellar assembly protein H; Validated; Region: fliH; PRK05687 561230008478 Flagellar assembly protein FliH; Region: FliH; pfam02108 561230008479 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 561230008480 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 561230008481 Walker A motif/ATP binding site; other site 561230008482 Walker B motif; other site 561230008483 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 561230008484 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 561230008485 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 561230008486 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 561230008487 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 561230008488 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 561230008489 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 561230008490 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 561230008491 flagellar motor switch protein; Validated; Region: fliN; PRK05698 561230008492 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 561230008493 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 561230008494 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 561230008495 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 561230008496 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 561230008497 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 561230008498 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 561230008499 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561230008500 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 561230008501 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 561230008502 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 561230008503 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 561230008504 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 561230008505 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 561230008506 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 561230008507 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 561230008508 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561230008509 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561230008510 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 561230008511 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561230008512 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561230008513 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 561230008514 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561230008515 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 561230008516 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561230008517 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 561230008518 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 561230008519 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 561230008520 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 561230008521 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561230008522 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561230008523 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 561230008524 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 561230008525 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 561230008526 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 561230008527 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 561230008528 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 561230008529 Flagellar biosynthesis/type III secretory pathway chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3418 561230008530 Flagellar protein FlhE; Region: FlhE; pfam06366 561230008531 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12468 561230008532 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 561230008533 chemotaxis regulator CheZ; Provisional; Region: PRK11166 561230008534 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 561230008535 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230008536 active site 561230008537 phosphorylation site [posttranslational modification] 561230008538 intermolecular recognition site; other site 561230008539 dimerization interface [polypeptide binding]; other site 561230008540 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 561230008541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230008542 active site 561230008543 phosphorylation site [posttranslational modification] 561230008544 intermolecular recognition site; other site 561230008545 dimerization interface [polypeptide binding]; other site 561230008546 CheB methylesterase; Region: CheB_methylest; pfam01339 561230008547 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 561230008548 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 561230008549 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 561230008550 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 561230008551 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561230008552 dimer interface [polypeptide binding]; other site 561230008553 ligand binding site [chemical binding]; other site 561230008554 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 561230008555 dimerization interface [polypeptide binding]; other site 561230008556 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230008557 dimer interface [polypeptide binding]; other site 561230008558 putative CheW interface [polypeptide binding]; other site 561230008559 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 561230008560 putative CheA interaction surface; other site 561230008561 chemotaxis protein CheA; Provisional; Region: PRK10547 561230008562 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 561230008563 putative binding surface; other site 561230008564 active site 561230008565 CheY binding; Region: CheY-binding; pfam09078 561230008566 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 561230008567 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 561230008568 ATP binding site [chemical binding]; other site 561230008569 Mg2+ binding site [ion binding]; other site 561230008570 G-X-G motif; other site 561230008571 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 561230008572 flagellar motor protein MotB; Validated; Region: motB; PRK09041 561230008573 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 561230008574 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 561230008575 ligand binding site [chemical binding]; other site 561230008576 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 561230008577 flagellar motor protein MotA; Validated; Region: PRK09110 561230008578 transcriptional activator FlhC; Provisional; Region: PRK12722 561230008579 transcriptional activator FlhD; Provisional; Region: PRK02909 561230008580 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561230008581 EamA-like transporter family; Region: EamA; pfam00892 561230008582 EamA-like transporter family; Region: EamA; pfam00892 561230008583 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561230008584 ligand binding site [chemical binding]; other site 561230008585 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 561230008586 dimerization interface [polypeptide binding]; other site 561230008587 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230008588 dimer interface [polypeptide binding]; other site 561230008589 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561230008590 putative CheW interface [polypeptide binding]; other site 561230008591 hypothetical protein; Provisional; Region: PRK10708 561230008592 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 561230008593 heme-binding site [chemical binding]; other site 561230008594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230008595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230008596 metal binding site [ion binding]; metal-binding site 561230008597 active site 561230008598 I-site; other site 561230008599 KTSC domain; Region: KTSC; pfam13619 561230008600 integrase; Provisional; Region: int; PHA02601 561230008601 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 561230008602 dimer interface [polypeptide binding]; other site 561230008603 active site 561230008604 catalytic residues [active] 561230008605 Int/Topo IB signature motif; other site 561230008606 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 561230008607 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 561230008608 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561230008609 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 561230008610 non-specific DNA binding site [nucleotide binding]; other site 561230008611 salt bridge; other site 561230008612 sequence-specific DNA binding site [nucleotide binding]; other site 561230008613 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 561230008614 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 561230008615 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 561230008616 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 561230008617 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; cl17393 561230008618 Phage-related protein [Function unknown]; Region: COG4695; cl01923 561230008619 Phage portal protein; Region: Phage_portal; pfam04860 561230008620 terminase ATPase subunit; Provisional; Region: P; PHA02535 561230008621 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 561230008622 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 561230008623 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 561230008624 capsid protein; Provisional; Region: N; PHA02538 561230008625 terminase endonuclease subunit; Provisional; Region: M; PHA02537 561230008626 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 561230008627 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 561230008628 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 561230008629 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 561230008630 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 561230008631 catalytic residues [active] 561230008632 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 561230008633 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 561230008634 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 561230008635 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 561230008636 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 561230008637 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 561230008638 Baseplate J-like protein; Region: Baseplate_J; cl01294 561230008639 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 561230008640 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 561230008641 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 561230008642 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 561230008643 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 561230008644 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 561230008645 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 561230008646 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 561230008647 Phage tail tube protein FII; Region: Phage_tube; pfam04985 561230008648 major tail sheath protein; Provisional; Region: FI; PHA02560 561230008649 tail protein; Provisional; Region: D; PHA02561 561230008650 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 561230008651 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 561230008652 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 561230008653 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 561230008654 GIY-YIG motif/motif A; other site 561230008655 active site 561230008656 catalytic site [active] 561230008657 putative DNA binding site [nucleotide binding]; other site 561230008658 metal binding site [ion binding]; metal-binding site 561230008659 UvrB/uvrC motif; Region: UVR; pfam02151 561230008660 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 561230008661 response regulator; Provisional; Region: PRK09483 561230008662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230008663 active site 561230008664 phosphorylation site [posttranslational modification] 561230008665 intermolecular recognition site; other site 561230008666 dimerization interface [polypeptide binding]; other site 561230008667 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 561230008668 DNA binding residues [nucleotide binding] 561230008669 dimerization interface [polypeptide binding]; other site 561230008670 hypothetical protein; Provisional; Region: PRK10613 561230008671 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 561230008672 anti-RssB factor; Provisional; Region: PRK10244 561230008673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230008674 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 561230008675 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561230008676 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 561230008677 catalytic site [active] 561230008678 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 561230008679 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 561230008680 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 561230008681 putative substrate translocation pore; other site 561230008682 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 561230008683 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 561230008684 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230008685 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230008686 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561230008687 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230008688 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 561230008689 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 561230008690 classical (c) SDRs; Region: SDR_c; cd05233 561230008691 NAD(P) binding site [chemical binding]; other site 561230008692 active site 561230008693 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561230008694 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 561230008695 FMN binding site [chemical binding]; other site 561230008696 active site 561230008697 substrate binding site [chemical binding]; other site 561230008698 catalytic residue [active] 561230008699 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230008700 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230008701 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_6; cd08475 561230008702 putative effector binding pocket; other site 561230008703 putative dimerization interface [polypeptide binding]; other site 561230008704 conserved hypothetical protein; Region: TIGR02118 561230008705 GTP-binding protein LepA; Provisional; Region: PRK05433 561230008706 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 561230008707 G1 box; other site 561230008708 putative GEF interaction site [polypeptide binding]; other site 561230008709 GTP/Mg2+ binding site [chemical binding]; other site 561230008710 Switch I region; other site 561230008711 G2 box; other site 561230008712 G3 box; other site 561230008713 Switch II region; other site 561230008714 G4 box; other site 561230008715 G5 box; other site 561230008716 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 561230008717 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 561230008718 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 561230008719 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 561230008720 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 561230008721 Sulfate transporter family; Region: Sulfate_transp; pfam00916 561230008722 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 561230008723 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 561230008724 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561230008725 galactonate dehydratase; Provisional; Region: PRK14017 561230008726 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 561230008727 active site pocket [active] 561230008728 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 561230008729 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 561230008730 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230008731 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230008732 MltA-interacting protein MipA; Region: MipA; cl01504 561230008733 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 561230008734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230008735 active site 561230008736 phosphorylation site [posttranslational modification] 561230008737 intermolecular recognition site; other site 561230008738 dimerization interface [polypeptide binding]; other site 561230008739 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 561230008740 DNA binding site [nucleotide binding] 561230008741 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561230008742 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 561230008743 dimer interface [polypeptide binding]; other site 561230008744 phosphorylation site [posttranslational modification] 561230008745 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 561230008746 ATP binding site [chemical binding]; other site 561230008747 Mg2+ binding site [ion binding]; other site 561230008748 G-X-G motif; other site 561230008749 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561230008750 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 561230008751 substrate binding pocket [chemical binding]; other site 561230008752 membrane-bound complex binding site; other site 561230008753 hinge residues; other site 561230008754 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 561230008755 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230008756 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 561230008757 dimer interface [polypeptide binding]; other site 561230008758 conserved gate region; other site 561230008759 putative PBP binding loops; other site 561230008760 ABC-ATPase subunit interface; other site 561230008761 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230008762 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 561230008763 dimer interface [polypeptide binding]; other site 561230008764 conserved gate region; other site 561230008765 putative PBP binding loops; other site 561230008766 ABC-ATPase subunit interface; other site 561230008767 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561230008768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230008769 Walker A/P-loop; other site 561230008770 ATP binding site [chemical binding]; other site 561230008771 Q-loop/lid; other site 561230008772 ABC transporter signature motif; other site 561230008773 Walker B; other site 561230008774 D-loop; other site 561230008775 H-loop/switch region; other site 561230008776 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 561230008777 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 561230008778 homodimer interface [polypeptide binding]; other site 561230008779 substrate-cofactor binding pocket; other site 561230008780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230008781 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561230008782 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 561230008783 dimer interface [polypeptide binding]; other site 561230008784 phosphorylation site [posttranslational modification] 561230008785 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 561230008786 ATP binding site [chemical binding]; other site 561230008787 Mg2+ binding site [ion binding]; other site 561230008788 G-X-G motif; other site 561230008789 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 561230008790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230008791 active site 561230008792 phosphorylation site [posttranslational modification] 561230008793 intermolecular recognition site; other site 561230008794 dimerization interface [polypeptide binding]; other site 561230008795 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 561230008796 DNA binding site [nucleotide binding] 561230008797 MltA-interacting protein MipA; Region: MipA; cl01504 561230008798 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 561230008799 Beta-lactamase; Region: Beta-lactamase; pfam00144 561230008800 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 561230008801 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 561230008802 non-specific DNA binding site [nucleotide binding]; other site 561230008803 salt bridge; other site 561230008804 sequence-specific DNA binding site [nucleotide binding]; other site 561230008805 Erythromycin esterase; Region: Erythro_esteras; cl17110 561230008806 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 561230008807 active site 561230008808 NTP binding site [chemical binding]; other site 561230008809 metal binding triad [ion binding]; metal-binding site 561230008810 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561230008811 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561230008812 Helix-turn-helix domain; Region: HTH_18; pfam12833 561230008813 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230008814 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 561230008815 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 561230008816 catalytic triad [active] 561230008817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 561230008818 putative transcriptional regulator; Provisional; Region: PRK11640 561230008819 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230008820 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561230008821 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 561230008822 active site 561230008823 FMN binding site [chemical binding]; other site 561230008824 substrate binding site [chemical binding]; other site 561230008825 homotetramer interface [polypeptide binding]; other site 561230008826 catalytic residue [active] 561230008827 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 561230008828 dimerization interface [polypeptide binding]; other site 561230008829 putative DNA binding site [nucleotide binding]; other site 561230008830 putative Zn2+ binding site [ion binding]; other site 561230008831 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 561230008832 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 561230008833 putative N- and C-terminal domain interface [polypeptide binding]; other site 561230008834 putative active site [active] 561230008835 MgATP binding site [chemical binding]; other site 561230008836 catalytic site [active] 561230008837 metal binding site [ion binding]; metal-binding site 561230008838 putative xylulose binding site [chemical binding]; other site 561230008839 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 561230008840 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 561230008841 putative ligand binding site [chemical binding]; other site 561230008842 putative NAD binding site [chemical binding]; other site 561230008843 catalytic site [active] 561230008844 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561230008845 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 561230008846 substrate binding site [chemical binding]; other site 561230008847 ATP binding site [chemical binding]; other site 561230008848 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230008849 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 561230008850 TM-ABC transporter signature motif; other site 561230008851 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 561230008852 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230008853 TM-ABC transporter signature motif; other site 561230008854 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561230008855 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561230008856 Walker A/P-loop; other site 561230008857 ATP binding site [chemical binding]; other site 561230008858 Q-loop/lid; other site 561230008859 ABC transporter signature motif; other site 561230008860 Walker B; other site 561230008861 D-loop; other site 561230008862 H-loop/switch region; other site 561230008863 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561230008864 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 561230008865 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 561230008866 putative ligand binding site [chemical binding]; other site 561230008867 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 561230008868 Cupin domain; Region: Cupin_2; cl17218 561230008869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 561230008870 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 561230008871 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 561230008872 hypothetical protein; Provisional; Region: PRK09956 561230008873 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 561230008874 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 561230008875 active site 561230008876 SAM binding site [chemical binding]; other site 561230008877 homodimer interface [polypeptide binding]; other site 561230008878 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 561230008879 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 561230008880 [4Fe-4S] binding site [ion binding]; other site 561230008881 molybdopterin cofactor binding site; other site 561230008882 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 561230008883 molybdopterin cofactor binding site; other site 561230008884 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 561230008885 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 561230008886 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230008887 nitrite reductase subunit NirD; Provisional; Region: PRK14989 561230008888 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230008889 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561230008890 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 561230008891 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561230008892 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561230008893 Walker A/P-loop; other site 561230008894 ATP binding site [chemical binding]; other site 561230008895 Q-loop/lid; other site 561230008896 ABC transporter signature motif; other site 561230008897 Walker B; other site 561230008898 D-loop; other site 561230008899 H-loop/switch region; other site 561230008900 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561230008901 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 561230008902 dimer interface [polypeptide binding]; other site 561230008903 conserved gate region; other site 561230008904 putative PBP binding loops; other site 561230008905 ABC-ATPase subunit interface; other site 561230008906 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561230008907 NMT1-like family; Region: NMT1_2; pfam13379 561230008908 Nitrate and nitrite sensing; Region: NIT; pfam08376 561230008909 ANTAR domain; Region: ANTAR; pfam03861 561230008910 Phage Tail Collar Domain; Region: Collar; pfam07484 561230008911 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 561230008912 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 561230008913 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 561230008914 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 561230008915 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 561230008916 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 561230008917 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 561230008918 Domain of unknown function (DUF202); Region: DUF202; cl09954 561230008919 Domain of unknown function (DUF202); Region: DUF202; pfam02656 561230008920 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 561230008921 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 561230008922 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 561230008923 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230008924 DNA-binding site [nucleotide binding]; DNA binding site 561230008925 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 561230008926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230008927 homodimer interface [polypeptide binding]; other site 561230008928 catalytic residue [active] 561230008929 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 561230008930 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 561230008931 catalytic triad [active] 561230008932 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 561230008933 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 561230008934 Trp docking motif [polypeptide binding]; other site 561230008935 putative active site [active] 561230008936 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 561230008937 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 561230008938 NADH(P)-binding; Region: NAD_binding_10; pfam13460 561230008939 NAD(P) binding site [chemical binding]; other site 561230008940 putative active site [active] 561230008941 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 561230008942 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 561230008943 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 561230008944 FeS/SAM binding site; other site 561230008945 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 561230008946 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 561230008947 N-terminal plug; other site 561230008948 ligand-binding site [chemical binding]; other site 561230008949 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 561230008950 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 561230008951 intersubunit interface [polypeptide binding]; other site 561230008952 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 561230008953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230008954 Walker A/P-loop; other site 561230008955 ATP binding site [chemical binding]; other site 561230008956 Q-loop/lid; other site 561230008957 ABC transporter signature motif; other site 561230008958 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561230008959 Walker B; other site 561230008960 D-loop; other site 561230008961 H-loop/switch region; other site 561230008962 ABC transporter; Region: ABC_tran_2; pfam12848 561230008963 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561230008964 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 561230008965 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 561230008966 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 561230008967 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561230008968 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 561230008969 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 561230008970 active site turn [active] 561230008971 phosphorylation site [posttranslational modification] 561230008972 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561230008973 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 561230008974 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 561230008975 Ca binding site [ion binding]; other site 561230008976 active site 561230008977 catalytic site [active] 561230008978 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 561230008979 hypothetical protein; Provisional; Region: PRK10404 561230008980 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 561230008981 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561230008982 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 561230008983 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561230008984 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 561230008985 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 561230008986 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561230008987 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 561230008988 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 561230008989 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 561230008990 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 561230008991 4Fe-4S binding domain; Region: Fer4; pfam00037 561230008992 4Fe-4S binding domain; Region: Fer4; pfam00037 561230008993 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 561230008994 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 561230008995 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 561230008996 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 561230008997 catalytic loop [active] 561230008998 iron binding site [ion binding]; other site 561230008999 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 561230009000 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 561230009001 [4Fe-4S] binding site [ion binding]; other site 561230009002 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 561230009003 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 561230009004 SLBB domain; Region: SLBB; pfam10531 561230009005 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 561230009006 NADH dehydrogenase subunit E; Validated; Region: PRK07539 561230009007 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 561230009008 putative dimer interface [polypeptide binding]; other site 561230009009 [2Fe-2S] cluster binding site [ion binding]; other site 561230009010 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 561230009011 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 561230009012 NADH dehydrogenase subunit D; Validated; Region: PRK06075 561230009013 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 561230009014 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 561230009015 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 561230009016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230009017 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 561230009018 putative dimerization interface [polypeptide binding]; other site 561230009019 aminotransferase AlaT; Validated; Region: PRK09265 561230009020 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 561230009021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230009022 homodimer interface [polypeptide binding]; other site 561230009023 catalytic residue [active] 561230009024 5'-nucleotidase; Provisional; Region: PRK03826 561230009025 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 561230009026 transmembrane helices; other site 561230009027 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 561230009028 TrkA-C domain; Region: TrkA_C; pfam02080 561230009029 TrkA-C domain; Region: TrkA_C; pfam02080 561230009030 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 561230009031 putative phosphatase; Provisional; Region: PRK11587 561230009032 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 561230009033 motif II; other site 561230009034 hypothetical protein; Validated; Region: PRK05445 561230009035 hypothetical protein; Provisional; Region: PRK01816 561230009036 propionate/acetate kinase; Provisional; Region: PRK12379 561230009037 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 561230009038 phosphate acetyltransferase; Reviewed; Region: PRK05632 561230009039 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 561230009040 DRTGG domain; Region: DRTGG; pfam07085 561230009041 phosphate acetyltransferase; Region: pta; TIGR00651 561230009042 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 561230009043 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 561230009044 nudix motif; other site 561230009045 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 561230009046 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561230009047 active site 561230009048 metal binding site [ion binding]; metal-binding site 561230009049 homotetramer interface [polypeptide binding]; other site 561230009050 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 561230009051 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 561230009052 C-terminal domain interface [polypeptide binding]; other site 561230009053 GSH binding site (G-site) [chemical binding]; other site 561230009054 dimer interface [polypeptide binding]; other site 561230009055 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 561230009056 N-terminal domain interface [polypeptide binding]; other site 561230009057 putative dimer interface [polypeptide binding]; other site 561230009058 active site 561230009059 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 561230009060 homooctamer interface [polypeptide binding]; other site 561230009061 active site 561230009062 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 561230009063 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 561230009064 putative NAD(P) binding site [chemical binding]; other site 561230009065 putative active site [active] 561230009066 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 561230009067 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561230009068 Walker A/P-loop; other site 561230009069 ATP binding site [chemical binding]; other site 561230009070 Q-loop/lid; other site 561230009071 ABC transporter signature motif; other site 561230009072 Walker B; other site 561230009073 D-loop; other site 561230009074 H-loop/switch region; other site 561230009075 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230009076 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 561230009077 dimer interface [polypeptide binding]; other site 561230009078 conserved gate region; other site 561230009079 putative PBP binding loops; other site 561230009080 ABC-ATPase subunit interface; other site 561230009081 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230009082 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 561230009083 dimer interface [polypeptide binding]; other site 561230009084 conserved gate region; other site 561230009085 putative PBP binding loops; other site 561230009086 ABC-ATPase subunit interface; other site 561230009087 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 561230009088 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 561230009089 substrate binding pocket [chemical binding]; other site 561230009090 membrane-bound complex binding site; other site 561230009091 hinge residues; other site 561230009092 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 561230009093 Flavoprotein; Region: Flavoprotein; pfam02441 561230009094 amidophosphoribosyltransferase; Provisional; Region: PRK09246 561230009095 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 561230009096 active site 561230009097 tetramer interface [polypeptide binding]; other site 561230009098 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561230009099 active site 561230009100 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 561230009101 colicin V production protein; Provisional; Region: PRK10845 561230009102 cell division protein DedD; Provisional; Region: PRK11633 561230009103 Sporulation related domain; Region: SPOR; pfam05036 561230009104 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 561230009105 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561230009106 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561230009107 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 561230009108 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 561230009109 hypothetical protein; Provisional; Region: PRK10847 561230009110 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561230009111 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 561230009112 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 561230009113 dimerization interface 3.5A [polypeptide binding]; other site 561230009114 active site 561230009115 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 561230009116 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 561230009117 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 561230009118 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 561230009119 ligand binding site [chemical binding]; other site 561230009120 NAD binding site [chemical binding]; other site 561230009121 catalytic site [active] 561230009122 homodimer interface [polypeptide binding]; other site 561230009123 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561230009124 EamA-like transporter family; Region: EamA; pfam00892 561230009125 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 561230009126 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 561230009127 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 561230009128 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 561230009129 dimer interface [polypeptide binding]; other site 561230009130 active site 561230009131 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 561230009132 Uncharacterized conserved protein [Function unknown]; Region: COG4121 561230009133 YfcL protein; Region: YfcL; pfam08891 561230009134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 561230009135 hypothetical protein; Provisional; Region: PRK10621 561230009136 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561230009137 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 561230009138 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 561230009139 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 561230009140 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 561230009141 Tetramer interface [polypeptide binding]; other site 561230009142 active site 561230009143 FMN-binding site [chemical binding]; other site 561230009144 HemK family putative methylases; Region: hemK_fam; TIGR00536 561230009145 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 561230009146 S-adenosylmethionine binding site [chemical binding]; other site 561230009147 hypothetical protein; Provisional; Region: PRK04946 561230009148 Smr domain; Region: Smr; pfam01713 561230009149 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 561230009150 catalytic core [active] 561230009151 Spore Coat Protein U domain; Region: SCPU; pfam05229 561230009152 Spore Coat Protein U domain; Region: SCPU; pfam05229 561230009153 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 561230009154 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 561230009155 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 561230009156 PapC N-terminal domain; Region: PapC_N; pfam13954 561230009157 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 561230009158 PapC C-terminal domain; Region: PapC_C; pfam13953 561230009159 Spore Coat Protein U domain; Region: SCPU; pfam05229 561230009160 Spore Coat Protein U domain; Region: SCPU; pfam05229 561230009161 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 561230009162 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 561230009163 substrate binding site [chemical binding]; other site 561230009164 oxyanion hole (OAH) forming residues; other site 561230009165 trimer interface [polypeptide binding]; other site 561230009166 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 561230009167 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 561230009168 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 561230009169 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 561230009170 dimer interface [polypeptide binding]; other site 561230009171 active site 561230009172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 561230009173 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 561230009174 malate:quinone oxidoreductase; Validated; Region: PRK05257 561230009175 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 561230009176 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 561230009177 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 561230009178 integrase; Provisional; Region: PRK09692 561230009179 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 561230009180 active site 561230009181 Int/Topo IB signature motif; other site 561230009182 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561230009183 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 561230009184 Coenzyme A binding pocket [chemical binding]; other site 561230009185 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 561230009186 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 561230009187 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 561230009188 putative DNA binding site [nucleotide binding]; other site 561230009189 putative Zn2+ binding site [ion binding]; other site 561230009190 AsnC family; Region: AsnC_trans_reg; pfam01037 561230009191 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561230009192 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 561230009193 putative substrate translocation pore; other site 561230009194 Necrosis inducing protein (NPP1); Region: NPP1; pfam05630 561230009195 Serine hydrolase; Region: Ser_hydrolase; pfam06821 561230009196 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561230009197 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 561230009198 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 561230009199 ATP binding site [chemical binding]; other site 561230009200 putative Mg++ binding site [ion binding]; other site 561230009201 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 561230009202 nucleotide binding region [chemical binding]; other site 561230009203 ATP-binding site [chemical binding]; other site 561230009204 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 561230009205 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561230009206 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 561230009207 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561230009208 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230009209 Walker A/P-loop; other site 561230009210 ATP binding site [chemical binding]; other site 561230009211 Q-loop/lid; other site 561230009212 ABC transporter signature motif; other site 561230009213 Walker B; other site 561230009214 D-loop; other site 561230009215 H-loop/switch region; other site 561230009216 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561230009217 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 561230009218 ABC-ATPase subunit interface; other site 561230009219 dimer interface [polypeptide binding]; other site 561230009220 putative PBP binding regions; other site 561230009221 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 561230009222 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 561230009223 putative ligand binding residues [chemical binding]; other site 561230009224 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 561230009225 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 561230009226 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 561230009227 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 561230009228 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 561230009229 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 561230009230 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 561230009231 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 561230009232 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 561230009233 GspL periplasmic domain; Region: GspL_C; pfam12693 561230009234 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 561230009235 type II secretion system protein J; Region: gspJ; TIGR01711 561230009236 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 561230009237 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 561230009238 type II secretion system protein I; Region: gspI; TIGR01707 561230009239 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 561230009240 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 561230009241 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 561230009242 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 561230009243 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 561230009244 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 561230009245 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 561230009246 type II secretion system protein F; Region: GspF; TIGR02120 561230009247 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561230009248 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561230009249 type II secretion system protein E; Region: type_II_gspE; TIGR02533 561230009250 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 561230009251 Walker A motif; other site 561230009252 ATP binding site [chemical binding]; other site 561230009253 Walker B motif; other site 561230009254 type II secretion system protein D; Region: type_II_gspD; TIGR02517 561230009255 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561230009256 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561230009257 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561230009258 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561230009259 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 561230009260 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 561230009261 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 561230009262 Interdomain contacts; other site 561230009263 Cytokine receptor motif; other site 561230009264 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 561230009265 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 561230009266 Amb_all domain; Region: Amb_all; smart00656 561230009267 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 561230009268 aminotransferase; Validated; Region: PRK08175 561230009269 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 561230009270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230009271 homodimer interface [polypeptide binding]; other site 561230009272 catalytic residue [active] 561230009273 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 561230009274 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 561230009275 active site 561230009276 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 561230009277 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 561230009278 homodimer interface [polypeptide binding]; other site 561230009279 substrate-cofactor binding pocket; other site 561230009280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230009281 catalytic residue [active] 561230009282 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 561230009283 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 561230009284 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561230009285 integrase; Provisional; Region: PRK09692 561230009286 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 561230009287 active site 561230009288 Int/Topo IB signature motif; other site 561230009289 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230009290 AAA domain; Region: AAA_21; pfam13304 561230009291 Walker A/P-loop; other site 561230009292 ATP binding site [chemical binding]; other site 561230009293 AAA domain; Region: AAA_21; pfam13304 561230009294 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 561230009295 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 561230009296 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 561230009297 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 561230009298 HsdM N-terminal domain; Region: HsdM_N; pfam12161 561230009299 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 561230009300 Methyltransferase domain; Region: Methyltransf_26; pfam13659 561230009301 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 561230009302 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 561230009303 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 561230009304 ATP binding site [chemical binding]; other site 561230009305 putative Mg++ binding site [ion binding]; other site 561230009306 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 561230009307 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 561230009308 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 561230009309 Predicted GTPase [General function prediction only]; Region: COG3596 561230009310 YfjP GTPase; Region: YfjP; cd11383 561230009311 G1 box; other site 561230009312 GTP/Mg2+ binding site [chemical binding]; other site 561230009313 Switch I region; other site 561230009314 G2 box; other site 561230009315 Switch II region; other site 561230009316 G3 box; other site 561230009317 G4 box; other site 561230009318 G5 box; other site 561230009319 Domain of unknown function (DUF932); Region: DUF932; pfam06067 561230009320 HTH domain; Region: HTH_11; pfam08279 561230009321 Stage III sporulation protein D; Region: SpoIIID; cl17560 561230009322 WYL domain; Region: WYL; pfam13280 561230009323 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 561230009324 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 561230009325 MPN+ (JAMM) motif; other site 561230009326 Zinc-binding site [ion binding]; other site 561230009327 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 561230009328 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 561230009329 Methyltransferase domain; Region: Methyltransf_27; pfam13708 561230009330 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 561230009331 active site 561230009332 metal-binding site [ion binding] 561230009333 nucleotide-binding site [chemical binding]; other site 561230009334 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 561230009335 substrate binding site [chemical binding]; other site 561230009336 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 561230009337 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 561230009338 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230009339 catalytic residue [active] 561230009340 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 561230009341 active site 561230009342 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 561230009343 nudix motif; other site 561230009344 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 561230009345 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 561230009346 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 561230009347 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 561230009348 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 561230009349 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 561230009350 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 561230009351 metal binding triad [ion binding]; metal-binding site 561230009352 hypothetical protein; Provisional; Region: PRK07190 561230009353 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 561230009354 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 561230009355 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 561230009356 substrate binding pocket [chemical binding]; other site 561230009357 active site 561230009358 iron coordination sites [ion binding]; other site 561230009359 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 561230009360 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 561230009361 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 561230009362 acyl-activating enzyme (AAE) consensus motif; other site 561230009363 AMP binding site [chemical binding]; other site 561230009364 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 561230009365 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 561230009366 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230009367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230009368 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 561230009369 putative effector binding pocket; other site 561230009370 putative dimerization interface [polypeptide binding]; other site 561230009371 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 561230009372 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 561230009373 active site 561230009374 methionine cluster; other site 561230009375 phosphorylation site [posttranslational modification] 561230009376 metal binding site [ion binding]; metal-binding site 561230009377 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561230009378 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561230009379 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561230009380 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 561230009381 dimer interface [polypeptide binding]; other site 561230009382 conserved gate region; other site 561230009383 ABC-ATPase subunit interface; other site 561230009384 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 561230009385 dimer interface [polypeptide binding]; other site 561230009386 conserved gate region; other site 561230009387 putative PBP binding loops; other site 561230009388 ABC-ATPase subunit interface; other site 561230009389 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561230009390 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 561230009391 Walker A/P-loop; other site 561230009392 ATP binding site [chemical binding]; other site 561230009393 Q-loop/lid; other site 561230009394 ABC transporter signature motif; other site 561230009395 Walker B; other site 561230009396 D-loop; other site 561230009397 H-loop/switch region; other site 561230009398 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 561230009399 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 561230009400 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 561230009401 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 561230009402 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 561230009403 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 561230009404 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 561230009405 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 561230009406 active site 561230009407 substrate binding site [chemical binding]; other site 561230009408 cosubstrate binding site; other site 561230009409 catalytic site [active] 561230009410 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 561230009411 active site 561230009412 hexamer interface [polypeptide binding]; other site 561230009413 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 561230009414 NAD binding site [chemical binding]; other site 561230009415 substrate binding site [chemical binding]; other site 561230009416 active site 561230009417 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 561230009418 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 561230009419 Ligand binding site; other site 561230009420 Putative Catalytic site; other site 561230009421 DXD motif; other site 561230009422 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 561230009423 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 561230009424 inhibitor-cofactor binding pocket; inhibition site 561230009425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230009426 catalytic residue [active] 561230009427 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 561230009428 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 561230009429 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 561230009430 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230009431 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230009432 metal binding site [ion binding]; metal-binding site 561230009433 active site 561230009434 I-site; other site 561230009435 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 561230009436 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 561230009437 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 561230009438 homodimer interface [polypeptide binding]; other site 561230009439 NADP binding site [chemical binding]; other site 561230009440 substrate binding site [chemical binding]; other site 561230009441 ribosome-associated protein; Provisional; Region: PRK11507 561230009442 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 561230009443 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 561230009444 active site 561230009445 HIGH motif; other site 561230009446 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 561230009447 KMSKS motif; other site 561230009448 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 561230009449 tRNA binding surface [nucleotide binding]; other site 561230009450 anticodon binding site; other site 561230009451 DoxX; Region: DoxX; pfam07681 561230009452 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 561230009453 substrate binding site [chemical binding]; other site 561230009454 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 561230009455 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561230009456 putative active site [active] 561230009457 putative metal binding site [ion binding]; other site 561230009458 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 561230009459 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 561230009460 ATP-grasp domain; Region: ATP-grasp; pfam02222 561230009461 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 561230009462 serine transporter; Region: stp; TIGR00814 561230009463 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 561230009464 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 561230009465 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 561230009466 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 561230009467 non-specific DNA binding site [nucleotide binding]; other site 561230009468 salt bridge; other site 561230009469 sequence-specific DNA binding site [nucleotide binding]; other site 561230009470 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 561230009471 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 561230009472 Walker A/P-loop; other site 561230009473 ATP binding site [chemical binding]; other site 561230009474 Q-loop/lid; other site 561230009475 ABC transporter signature motif; other site 561230009476 Walker B; other site 561230009477 D-loop; other site 561230009478 H-loop/switch region; other site 561230009479 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 561230009480 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 561230009481 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 561230009482 dimer interface [polypeptide binding]; other site 561230009483 conserved gate region; other site 561230009484 ABC-ATPase subunit interface; other site 561230009485 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 561230009486 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 561230009487 dimer interface [polypeptide binding]; other site 561230009488 conserved gate region; other site 561230009489 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 561230009490 dimer interface [polypeptide binding]; other site 561230009491 conserved gate region; other site 561230009492 putative PBP binding loops; other site 561230009493 ABC-ATPase subunit interface; other site 561230009494 polyphosphate kinase; Provisional; Region: PRK05443 561230009495 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 561230009496 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 561230009497 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 561230009498 domain interface [polypeptide binding]; other site 561230009499 active site 561230009500 catalytic site [active] 561230009501 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 561230009502 domain interface [polypeptide binding]; other site 561230009503 active site 561230009504 catalytic site [active] 561230009505 exopolyphosphatase; Provisional; Region: PRK10854 561230009506 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561230009507 nucleotide binding site [chemical binding]; other site 561230009508 Putative motility protein; Region: YjfB_motility; pfam14070 561230009509 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 561230009510 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 561230009511 Transcriptional regulators [Transcription]; Region: MarR; COG1846 561230009512 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 561230009513 putative Zn2+ binding site [ion binding]; other site 561230009514 putative DNA binding site [nucleotide binding]; other site 561230009515 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 561230009516 MgtE intracellular N domain; Region: MgtE_N; smart00924 561230009517 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 561230009518 Divalent cation transporter; Region: MgtE; cl00786 561230009519 galactokinase; Provisional; Region: PRK05101 561230009520 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 561230009521 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 561230009522 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 561230009523 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 561230009524 dimer interface [polypeptide binding]; other site 561230009525 active site 561230009526 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 561230009527 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230009528 DNA binding site [nucleotide binding] 561230009529 domain linker motif; other site 561230009530 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 561230009531 dimerization interface (closed form) [polypeptide binding]; other site 561230009532 ligand binding site [chemical binding]; other site 561230009533 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 561230009534 trimer interface; other site 561230009535 sugar binding site [chemical binding]; other site 561230009536 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561230009537 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561230009538 Walker A/P-loop; other site 561230009539 ATP binding site [chemical binding]; other site 561230009540 Q-loop/lid; other site 561230009541 ABC transporter signature motif; other site 561230009542 Walker B; other site 561230009543 D-loop; other site 561230009544 H-loop/switch region; other site 561230009545 TOBE domain; Region: TOBE_2; pfam08402 561230009546 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 561230009547 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561230009548 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 561230009549 dimer interface [polypeptide binding]; other site 561230009550 conserved gate region; other site 561230009551 ABC-ATPase subunit interface; other site 561230009552 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561230009553 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 561230009554 dimer interface [polypeptide binding]; other site 561230009555 conserved gate region; other site 561230009556 putative PBP binding loops; other site 561230009557 ABC-ATPase subunit interface; other site 561230009558 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 561230009559 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 561230009560 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 561230009561 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 561230009562 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 561230009563 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 561230009564 active site turn [active] 561230009565 phosphorylation site [posttranslational modification] 561230009566 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 561230009567 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561230009568 active site 561230009569 catalytic tetrad [active] 561230009570 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 561230009571 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 561230009572 Nucleoside recognition; Region: Gate; pfam07670 561230009573 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 561230009574 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 561230009575 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230009576 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230009577 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 561230009578 Protein export membrane protein; Region: SecD_SecF; cl14618 561230009579 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 561230009580 putative transporter; Provisional; Region: PRK10504 561230009581 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 561230009582 putative substrate translocation pore; other site 561230009583 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 561230009584 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 561230009585 dimerization interface [polypeptide binding]; other site 561230009586 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 561230009587 dimer interface [polypeptide binding]; other site 561230009588 phosphorylation site [posttranslational modification] 561230009589 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 561230009590 ATP binding site [chemical binding]; other site 561230009591 Mg2+ binding site [ion binding]; other site 561230009592 G-X-G motif; other site 561230009593 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 561230009594 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230009595 active site 561230009596 phosphorylation site [posttranslational modification] 561230009597 intermolecular recognition site; other site 561230009598 dimerization interface [polypeptide binding]; other site 561230009599 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 561230009600 DNA binding site [nucleotide binding] 561230009601 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 561230009602 trimer interface [polypeptide binding]; other site 561230009603 active site 561230009604 substrate binding site [chemical binding]; other site 561230009605 CoA binding site [chemical binding]; other site 561230009606 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561230009607 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 561230009608 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 561230009609 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 561230009610 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 561230009611 putative dimer interface [polypeptide binding]; other site 561230009612 N-terminal domain interface [polypeptide binding]; other site 561230009613 putative substrate binding pocket (H-site) [chemical binding]; other site 561230009614 putative protease; Provisional; Region: PRK15452 561230009615 Peptidase family U32; Region: Peptidase_U32; pfam01136 561230009616 lipid kinase; Reviewed; Region: PRK13054 561230009617 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 561230009618 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 561230009619 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 561230009620 dimer interface [polypeptide binding]; other site 561230009621 substrate binding site [chemical binding]; other site 561230009622 ATP binding site [chemical binding]; other site 561230009623 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 561230009624 substrate binding site [chemical binding]; other site 561230009625 multimerization interface [polypeptide binding]; other site 561230009626 ATP binding site [chemical binding]; other site 561230009627 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 561230009628 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 561230009629 putative NAD(P) binding site [chemical binding]; other site 561230009630 putative substrate binding site [chemical binding]; other site 561230009631 catalytic Zn binding site [ion binding]; other site 561230009632 structural Zn binding site [ion binding]; other site 561230009633 dimer interface [polypeptide binding]; other site 561230009634 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230009635 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230009636 metal binding site [ion binding]; metal-binding site 561230009637 active site 561230009638 I-site; other site 561230009639 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 561230009640 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 561230009641 NAD binding site [chemical binding]; other site 561230009642 substrate binding site [chemical binding]; other site 561230009643 catalytic Zn binding site [ion binding]; other site 561230009644 tetramer interface [polypeptide binding]; other site 561230009645 structural Zn binding site [ion binding]; other site 561230009646 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561230009647 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 561230009648 dimer interface [polypeptide binding]; other site 561230009649 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561230009650 metal binding site [ion binding]; metal-binding site 561230009651 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230009652 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230009653 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 561230009654 putative dimerization interface [polypeptide binding]; other site 561230009655 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 561230009656 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 561230009657 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 561230009658 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 561230009659 YCII-related domain; Region: YCII; cl00999 561230009660 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 561230009661 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561230009662 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 561230009663 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561230009664 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 561230009665 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 561230009666 conserved cys residue [active] 561230009667 HTH domain; Region: HTH_11; cl17392 561230009668 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230009669 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 561230009670 Sel1-like repeats; Region: SEL1; smart00671 561230009671 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 561230009672 Sel1-like repeats; Region: SEL1; smart00671 561230009673 Sel1-like repeats; Region: SEL1; smart00671 561230009674 YcxB-like protein; Region: YcxB; pfam14317 561230009675 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561230009676 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 561230009677 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 561230009678 GMP synthase; Reviewed; Region: guaA; PRK00074 561230009679 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 561230009680 AMP/PPi binding site [chemical binding]; other site 561230009681 candidate oxyanion hole; other site 561230009682 catalytic triad [active] 561230009683 potential glutamine specificity residues [chemical binding]; other site 561230009684 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 561230009685 ATP Binding subdomain [chemical binding]; other site 561230009686 Ligand Binding sites [chemical binding]; other site 561230009687 Dimerization subdomain; other site 561230009688 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 561230009689 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 561230009690 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 561230009691 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 561230009692 active site 561230009693 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 561230009694 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 561230009695 generic binding surface II; other site 561230009696 generic binding surface I; other site 561230009697 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 561230009698 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 561230009699 active site 561230009700 Zn binding site [ion binding]; other site 561230009701 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 561230009702 Predicted permeases [General function prediction only]; Region: COG0679 561230009703 GTP-binding protein Der; Reviewed; Region: PRK00093 561230009704 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 561230009705 G1 box; other site 561230009706 GTP/Mg2+ binding site [chemical binding]; other site 561230009707 Switch I region; other site 561230009708 G2 box; other site 561230009709 Switch II region; other site 561230009710 G3 box; other site 561230009711 G4 box; other site 561230009712 G5 box; other site 561230009713 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 561230009714 G1 box; other site 561230009715 GTP/Mg2+ binding site [chemical binding]; other site 561230009716 Switch I region; other site 561230009717 G2 box; other site 561230009718 G3 box; other site 561230009719 Switch II region; other site 561230009720 G4 box; other site 561230009721 G5 box; other site 561230009722 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 561230009723 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 561230009724 Trp docking motif [polypeptide binding]; other site 561230009725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 561230009726 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 561230009727 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 561230009728 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 561230009729 dimer interface [polypeptide binding]; other site 561230009730 motif 1; other site 561230009731 active site 561230009732 motif 2; other site 561230009733 motif 3; other site 561230009734 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 561230009735 anticodon binding site; other site 561230009736 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 561230009737 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 561230009738 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 561230009739 cytoskeletal protein RodZ; Provisional; Region: PRK10856 561230009740 Helix-turn-helix domain; Region: HTH_25; pfam13413 561230009741 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 561230009742 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 561230009743 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 561230009744 binding surface 561230009745 TPR motif; other site 561230009746 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 561230009747 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 561230009748 FeS/SAM binding site; other site 561230009749 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 561230009750 active site 561230009751 multimer interface [polypeptide binding]; other site 561230009752 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 561230009753 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561230009754 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 561230009755 active site turn [active] 561230009756 phosphorylation site [posttranslational modification] 561230009757 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 561230009758 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 561230009759 NAD binding site [chemical binding]; other site 561230009760 sugar binding site [chemical binding]; other site 561230009761 divalent metal binding site [ion binding]; other site 561230009762 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 561230009763 dimer interface [polypeptide binding]; other site 561230009764 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 561230009765 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 561230009766 active site residue [active] 561230009767 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 561230009768 active site residue [active] 561230009769 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 561230009770 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 561230009771 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 561230009772 putative active site [active] 561230009773 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 561230009774 aminopeptidase B; Provisional; Region: PRK05015 561230009775 Peptidase; Region: DUF3663; pfam12404 561230009776 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 561230009777 interface (dimer of trimers) [polypeptide binding]; other site 561230009778 Substrate-binding/catalytic site; other site 561230009779 Zn-binding sites [ion binding]; other site 561230009780 hypothetical protein; Provisional; Region: PRK10721 561230009781 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 561230009782 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 561230009783 catalytic loop [active] 561230009784 iron binding site [ion binding]; other site 561230009785 chaperone protein HscA; Provisional; Region: hscA; PRK05183 561230009786 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 561230009787 nucleotide binding site [chemical binding]; other site 561230009788 putative NEF/HSP70 interaction site [polypeptide binding]; other site 561230009789 SBD interface [polypeptide binding]; other site 561230009790 co-chaperone HscB; Provisional; Region: hscB; PRK05014 561230009791 DnaJ domain; Region: DnaJ; pfam00226 561230009792 HSP70 interaction site [polypeptide binding]; other site 561230009793 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 561230009794 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 561230009795 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 561230009796 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 561230009797 trimerization site [polypeptide binding]; other site 561230009798 active site 561230009799 cysteine desulfurase; Provisional; Region: PRK14012 561230009800 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 561230009801 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230009802 catalytic residue [active] 561230009803 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 561230009804 Rrf2 family protein; Region: rrf2_super; TIGR00738 561230009805 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 561230009806 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561230009807 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 561230009808 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 561230009809 active site 561230009810 dimerization interface [polypeptide binding]; other site 561230009811 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 561230009812 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 561230009813 intersubunit interface [polypeptide binding]; other site 561230009814 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561230009815 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 561230009816 ABC-ATPase subunit interface; other site 561230009817 dimer interface [polypeptide binding]; other site 561230009818 putative PBP binding regions; other site 561230009819 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561230009820 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561230009821 Walker A/P-loop; other site 561230009822 ATP binding site [chemical binding]; other site 561230009823 Q-loop/lid; other site 561230009824 ABC transporter signature motif; other site 561230009825 Walker B; other site 561230009826 D-loop; other site 561230009827 H-loop/switch region; other site 561230009828 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230009829 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 561230009830 dimerization interface [polypeptide binding]; other site 561230009831 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230009832 dimer interface [polypeptide binding]; other site 561230009833 putative CheW interface [polypeptide binding]; other site 561230009834 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 561230009835 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 561230009836 putative ligand binding residues [chemical binding]; other site 561230009837 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 561230009838 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 561230009839 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 561230009840 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 561230009841 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 561230009842 dimer interface [polypeptide binding]; other site 561230009843 active site 561230009844 glycine-pyridoxal phosphate binding site [chemical binding]; other site 561230009845 folate binding site [chemical binding]; other site 561230009846 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 561230009847 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 561230009848 heme-binding site [chemical binding]; other site 561230009849 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 561230009850 FAD binding pocket [chemical binding]; other site 561230009851 FAD binding motif [chemical binding]; other site 561230009852 phosphate binding motif [ion binding]; other site 561230009853 beta-alpha-beta structure motif; other site 561230009854 NAD binding pocket [chemical binding]; other site 561230009855 Heme binding pocket [chemical binding]; other site 561230009856 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 561230009857 active site 561230009858 catalytic triad [active] 561230009859 oxyanion hole [active] 561230009860 putative pectinesterase; Region: PLN02432; cl01911 561230009861 Pectinesterase; Region: Pectinesterase; pfam01095 561230009862 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 561230009863 Nitrogen regulatory protein P-II; Region: P-II; smart00938 561230009864 response regulator GlrR; Provisional; Region: PRK15115 561230009865 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230009866 active site 561230009867 phosphorylation site [posttranslational modification] 561230009868 intermolecular recognition site; other site 561230009869 dimerization interface [polypeptide binding]; other site 561230009870 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 561230009871 Walker A motif; other site 561230009872 ATP binding site [chemical binding]; other site 561230009873 Walker B motif; other site 561230009874 arginine finger; other site 561230009875 hypothetical protein; Provisional; Region: PRK10722 561230009876 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561230009877 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 561230009878 dimer interface [polypeptide binding]; other site 561230009879 phosphorylation site [posttranslational modification] 561230009880 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 561230009881 ATP binding site [chemical binding]; other site 561230009882 Mg2+ binding site [ion binding]; other site 561230009883 G-X-G motif; other site 561230009884 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 561230009885 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 561230009886 dimerization interface [polypeptide binding]; other site 561230009887 ATP binding site [chemical binding]; other site 561230009888 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 561230009889 dimerization interface [polypeptide binding]; other site 561230009890 ATP binding site [chemical binding]; other site 561230009891 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 561230009892 putative active site [active] 561230009893 catalytic triad [active] 561230009894 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 561230009895 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 561230009896 substrate binding pocket [chemical binding]; other site 561230009897 membrane-bound complex binding site; other site 561230009898 hinge residues; other site 561230009899 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 561230009900 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561230009901 catalytic residue [active] 561230009902 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 561230009903 nucleoside/Zn binding site; other site 561230009904 dimer interface [polypeptide binding]; other site 561230009905 catalytic motif [active] 561230009906 hypothetical protein; Provisional; Region: PRK11590 561230009907 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 561230009908 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 561230009909 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 561230009910 putative active site [active] 561230009911 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 561230009912 HAMP domain; Region: HAMP; pfam00672 561230009913 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230009914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230009915 metal binding site [ion binding]; metal-binding site 561230009916 active site 561230009917 I-site; other site 561230009918 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 561230009919 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009920 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009921 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009922 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009923 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009924 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009925 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009926 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009927 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009928 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009929 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009930 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 561230009931 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 561230009932 metal ion-dependent adhesion site (MIDAS); other site 561230009933 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 561230009934 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 561230009935 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 561230009936 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 561230009937 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561230009938 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 561230009939 Walker A/P-loop; other site 561230009940 ATP binding site [chemical binding]; other site 561230009941 Q-loop/lid; other site 561230009942 ABC transporter signature motif; other site 561230009943 Walker B; other site 561230009944 D-loop; other site 561230009945 H-loop/switch region; other site 561230009946 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 561230009947 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230009948 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 561230009949 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230009950 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 561230009951 PAS domain; Region: PAS_9; pfam13426 561230009952 putative active site [active] 561230009953 heme pocket [chemical binding]; other site 561230009954 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 561230009955 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 561230009956 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230009957 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230009958 metal binding site [ion binding]; metal-binding site 561230009959 active site 561230009960 I-site; other site 561230009961 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 561230009962 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 561230009963 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 561230009964 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 561230009965 active site 561230009966 hydrophilic channel; other site 561230009967 dimerization interface [polypeptide binding]; other site 561230009968 catalytic residues [active] 561230009969 active site lid [active] 561230009970 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 561230009971 Recombination protein O N terminal; Region: RecO_N; pfam11967 561230009972 Recombination protein O C terminal; Region: RecO_C; pfam02565 561230009973 GTPase Era; Reviewed; Region: era; PRK00089 561230009974 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 561230009975 G1 box; other site 561230009976 GTP/Mg2+ binding site [chemical binding]; other site 561230009977 Switch I region; other site 561230009978 G2 box; other site 561230009979 Switch II region; other site 561230009980 G3 box; other site 561230009981 G4 box; other site 561230009982 G5 box; other site 561230009983 KH domain; Region: KH_2; pfam07650 561230009984 ribonuclease III; Reviewed; Region: rnc; PRK00102 561230009985 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 561230009986 dimerization interface [polypeptide binding]; other site 561230009987 active site 561230009988 metal binding site [ion binding]; metal-binding site 561230009989 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 561230009990 dsRNA binding site [nucleotide binding]; other site 561230009991 signal peptidase I; Provisional; Region: PRK10861 561230009992 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 561230009993 Catalytic site [active] 561230009994 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 561230009995 GTP-binding protein LepA; Provisional; Region: PRK05433 561230009996 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 561230009997 G1 box; other site 561230009998 putative GEF interaction site [polypeptide binding]; other site 561230009999 GTP/Mg2+ binding site [chemical binding]; other site 561230010000 Switch I region; other site 561230010001 G2 box; other site 561230010002 G3 box; other site 561230010003 Switch II region; other site 561230010004 G4 box; other site 561230010005 G5 box; other site 561230010006 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 561230010007 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 561230010008 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 561230010009 SoxR reducing system protein RseC; Provisional; Region: PRK10862 561230010010 anti-sigma E factor; Provisional; Region: rseB; PRK09455 561230010011 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 561230010012 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 561230010013 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 561230010014 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 561230010015 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 561230010016 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230010017 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 561230010018 DNA binding residues [nucleotide binding] 561230010019 L-aspartate oxidase; Provisional; Region: PRK09077 561230010020 L-aspartate oxidase; Provisional; Region: PRK06175 561230010021 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 561230010022 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 561230010023 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 561230010024 S-adenosylmethionine binding site [chemical binding]; other site 561230010025 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 561230010026 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 561230010027 ATP binding site [chemical binding]; other site 561230010028 Mg++ binding site [ion binding]; other site 561230010029 motif III; other site 561230010030 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 561230010031 nucleotide binding region [chemical binding]; other site 561230010032 ATP-binding site [chemical binding]; other site 561230010033 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 561230010034 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 561230010035 ligand binding site [chemical binding]; other site 561230010036 active site 561230010037 UGI interface [polypeptide binding]; other site 561230010038 catalytic site [active] 561230010039 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 561230010040 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 561230010041 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 561230010042 active site 561230010043 HIGH motif; other site 561230010044 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 561230010045 active site 561230010046 KMSKS motif; other site 561230010047 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 561230010048 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230010049 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 561230010050 muropeptide transporter; Validated; Region: ampG; cl17669 561230010051 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561230010052 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 561230010053 N-terminal plug; other site 561230010054 ligand-binding site [chemical binding]; other site 561230010055 DoxX; Region: DoxX; pfam07681 561230010056 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 561230010057 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 561230010058 Walker A/P-loop; other site 561230010059 ATP binding site [chemical binding]; other site 561230010060 Q-loop/lid; other site 561230010061 ABC transporter signature motif; other site 561230010062 Walker B; other site 561230010063 D-loop; other site 561230010064 H-loop/switch region; other site 561230010065 TOBE-like domain; Region: TOBE_3; pfam12857 561230010066 sulfate transport protein; Provisional; Region: cysT; CHL00187 561230010067 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 561230010068 dimer interface [polypeptide binding]; other site 561230010069 conserved gate region; other site 561230010070 putative PBP binding loops; other site 561230010071 ABC-ATPase subunit interface; other site 561230010072 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561230010073 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 561230010074 dimer interface [polypeptide binding]; other site 561230010075 conserved gate region; other site 561230010076 putative PBP binding loops; other site 561230010077 ABC-ATPase subunit interface; other site 561230010078 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561230010079 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 561230010080 substrate binding pocket [chemical binding]; other site 561230010081 membrane-bound complex binding site; other site 561230010082 hinge residues; other site 561230010083 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 561230010084 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 561230010085 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 561230010086 serine endoprotease; Provisional; Region: PRK10942 561230010087 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 561230010088 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 561230010089 protein binding site [polypeptide binding]; other site 561230010090 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 561230010091 protein binding site [polypeptide binding]; other site 561230010092 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 561230010093 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 561230010094 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 561230010095 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 561230010096 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 561230010097 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 561230010098 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 561230010099 cobalamin binding residues [chemical binding]; other site 561230010100 putative BtuC binding residues; other site 561230010101 dimer interface [polypeptide binding]; other site 561230010102 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 561230010103 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 561230010104 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 561230010105 Cl- selectivity filter; other site 561230010106 Cl- binding residues [ion binding]; other site 561230010107 pore gating glutamate residue; other site 561230010108 dimer interface [polypeptide binding]; other site 561230010109 H+/Cl- coupling transport residue; other site 561230010110 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 561230010111 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 561230010112 inhibitor-cofactor binding pocket; inhibition site 561230010113 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230010114 catalytic residue [active] 561230010115 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561230010116 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 561230010117 putative C-terminal domain interface [polypeptide binding]; other site 561230010118 putative GSH binding site (G-site) [chemical binding]; other site 561230010119 putative dimer interface [polypeptide binding]; other site 561230010120 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 561230010121 putative N-terminal domain interface [polypeptide binding]; other site 561230010122 putative dimer interface [polypeptide binding]; other site 561230010123 putative substrate binding pocket (H-site) [chemical binding]; other site 561230010124 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 561230010125 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230010126 DNA-binding site [nucleotide binding]; DNA binding site 561230010127 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 561230010128 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230010129 homodimer interface [polypeptide binding]; other site 561230010130 catalytic residue [active] 561230010131 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561230010132 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561230010133 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 561230010134 ABC-ATPase subunit interface; other site 561230010135 dimer interface [polypeptide binding]; other site 561230010136 putative PBP binding regions; other site 561230010137 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 561230010138 ABC-ATPase subunit interface; other site 561230010139 dimer interface [polypeptide binding]; other site 561230010140 putative PBP binding regions; other site 561230010141 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 561230010142 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 561230010143 siderophore binding site; other site 561230010144 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 561230010145 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561230010146 Walker A/P-loop; other site 561230010147 ATP binding site [chemical binding]; other site 561230010148 Q-loop/lid; other site 561230010149 ABC transporter signature motif; other site 561230010150 Walker B; other site 561230010151 D-loop; other site 561230010152 H-loop/switch region; other site 561230010153 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 561230010154 Transglycosylase; Region: Transgly; pfam00912 561230010155 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 561230010156 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 561230010157 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 561230010158 ATP binding site [chemical binding]; other site 561230010159 putative Mg++ binding site [ion binding]; other site 561230010160 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 561230010161 nucleotide binding region [chemical binding]; other site 561230010162 ATP-binding site [chemical binding]; other site 561230010163 Helicase associated domain (HA2); Region: HA2; pfam04408 561230010164 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 561230010165 2'-5' RNA ligase; Provisional; Region: PRK15124 561230010166 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 561230010167 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 561230010168 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 561230010169 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 561230010170 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 561230010171 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 561230010172 active site 561230010173 nucleotide binding site [chemical binding]; other site 561230010174 HIGH motif; other site 561230010175 KMSKS motif; other site 561230010176 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 561230010177 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 561230010178 active site 561230010179 NTP binding site [chemical binding]; other site 561230010180 metal binding triad [ion binding]; metal-binding site 561230010181 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 561230010182 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 561230010183 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 561230010184 catalytic center binding site [active] 561230010185 ATP binding site [chemical binding]; other site 561230010186 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 561230010187 oligomerization interface [polypeptide binding]; other site 561230010188 active site 561230010189 metal binding site [ion binding]; metal-binding site 561230010190 Pantoate-beta-alanine ligase; Region: PanC; cd00560 561230010191 pantoate--beta-alanine ligase; Region: panC; TIGR00018 561230010192 active site 561230010193 ATP-binding site [chemical binding]; other site 561230010194 pantoate-binding site; other site 561230010195 HXXH motif; other site 561230010196 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 561230010197 tetramerization interface [polypeptide binding]; other site 561230010198 active site 561230010199 inner membrane transport permease; Provisional; Region: PRK15066 561230010200 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 561230010201 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 561230010202 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 561230010203 Walker A/P-loop; other site 561230010204 ATP binding site [chemical binding]; other site 561230010205 Q-loop/lid; other site 561230010206 ABC transporter signature motif; other site 561230010207 Walker B; other site 561230010208 D-loop; other site 561230010209 H-loop/switch region; other site 561230010210 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 561230010211 active site clefts [active] 561230010212 zinc binding site [ion binding]; other site 561230010213 dimer interface [polypeptide binding]; other site 561230010214 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561230010215 active site 561230010216 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230010217 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561230010218 Coenzyme A binding pocket [chemical binding]; other site 561230010219 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561230010220 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 561230010221 Walker A/P-loop; other site 561230010222 ATP binding site [chemical binding]; other site 561230010223 Q-loop/lid; other site 561230010224 ABC transporter signature motif; other site 561230010225 Walker B; other site 561230010226 D-loop; other site 561230010227 H-loop/switch region; other site 561230010228 TOBE domain; Region: TOBE_2; pfam08402 561230010229 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561230010230 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 561230010231 dimer interface [polypeptide binding]; other site 561230010232 conserved gate region; other site 561230010233 putative PBP binding loops; other site 561230010234 ABC-ATPase subunit interface; other site 561230010235 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 561230010236 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 561230010237 spermidine synthase; Provisional; Region: PRK00811 561230010238 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 561230010239 S-adenosylmethionine binding site [chemical binding]; other site 561230010240 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 561230010241 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 561230010242 catalytic residues [active] 561230010243 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 561230010244 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 561230010245 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 561230010246 Class I ribonucleotide reductase; Region: RNR_I; cd01679 561230010247 active site 561230010248 dimer interface [polypeptide binding]; other site 561230010249 catalytic residues [active] 561230010250 effector binding site; other site 561230010251 R2 peptide binding site; other site 561230010252 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 561230010253 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 561230010254 dimer interface [polypeptide binding]; other site 561230010255 putative radical transfer pathway; other site 561230010256 diiron center [ion binding]; other site 561230010257 tyrosyl radical; other site 561230010258 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 561230010259 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 561230010260 active site 561230010261 catalytic site [active] 561230010262 substrate binding site [chemical binding]; other site 561230010263 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 561230010264 RNA/DNA hybrid binding site [nucleotide binding]; other site 561230010265 active site 561230010266 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 561230010267 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 561230010268 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 561230010269 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 561230010270 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561230010271 catalytic residue [active] 561230010272 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561230010273 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561230010274 hypothetical protein; Provisional; Region: PRK05421 561230010275 putative catalytic site [active] 561230010276 putative metal binding site [ion binding]; other site 561230010277 putative catalytic site [active] 561230010278 putative phosphate binding site [ion binding]; other site 561230010279 putative phosphate binding site [ion binding]; other site 561230010280 putative metal binding site [ion binding]; other site 561230010281 protein disaggregation chaperone; Provisional; Region: PRK10865 561230010282 Clp amino terminal domain; Region: Clp_N; pfam02861 561230010283 Clp amino terminal domain; Region: Clp_N; pfam02861 561230010284 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 561230010285 Walker A motif; other site 561230010286 ATP binding site [chemical binding]; other site 561230010287 Walker B motif; other site 561230010288 arginine finger; other site 561230010289 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 561230010290 Walker A motif; other site 561230010291 ATP binding site [chemical binding]; other site 561230010292 Walker B motif; other site 561230010293 arginine finger; other site 561230010294 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 561230010295 hypothetical protein; Provisional; Region: PRK10723 561230010296 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 561230010297 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 561230010298 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 561230010299 RNA binding surface [nucleotide binding]; other site 561230010300 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 561230010301 active site 561230010302 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 561230010303 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 561230010304 30S subunit binding site; other site 561230010305 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 561230010306 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 561230010307 Prephenate dehydratase; Region: PDT; pfam00800 561230010308 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 561230010309 putative L-Phe binding site [chemical binding]; other site 561230010310 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 561230010311 Chorismate mutase type II; Region: CM_2; cl00693 561230010312 prephenate dehydrogenase; Validated; Region: PRK08507 561230010313 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 561230010314 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561230010315 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 561230010316 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230010317 active site 561230010318 phosphorylation site [posttranslational modification] 561230010319 intermolecular recognition site; other site 561230010320 dimerization interface [polypeptide binding]; other site 561230010321 LytTr DNA-binding domain; Region: LytTR; pfam04397 561230010322 lipoprotein; Provisional; Region: PRK11443 561230010323 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 561230010324 Methyltransferase domain; Region: Methyltransf_31; pfam13847 561230010325 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 561230010326 S-adenosylmethionine binding site [chemical binding]; other site 561230010327 integrase; Provisional; Region: int; PHA02601 561230010328 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 561230010329 active site 561230010330 DNA binding site [nucleotide binding] 561230010331 Int/Topo IB signature motif; other site 561230010332 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 561230010333 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 561230010334 non-specific DNA binding site [nucleotide binding]; other site 561230010335 salt bridge; other site 561230010336 sequence-specific DNA binding site [nucleotide binding]; other site 561230010337 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 561230010338 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 561230010339 DksA-like zinc finger domain containing protein; Region: PHA00080 561230010340 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 561230010341 portal vertex protein; Provisional; Region: Q; PHA02536 561230010342 Phage portal protein; Region: Phage_portal; pfam04860 561230010343 terminase ATPase subunit; Provisional; Region: P; PHA02535 561230010344 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 561230010345 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 561230010346 capsid protein; Provisional; Region: N; PHA02538 561230010347 terminase endonuclease subunit; Provisional; Region: M; PHA02537 561230010348 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 561230010349 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 561230010350 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 561230010351 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 561230010352 catalytic residues [active] 561230010353 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 561230010354 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 561230010355 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 561230010356 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 561230010357 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 561230010358 sequence-specific DNA binding site [nucleotide binding]; other site 561230010359 salt bridge; other site 561230010360 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 561230010361 ORF6N domain; Region: ORF6N; pfam10543 561230010362 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 561230010363 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 561230010364 baseplate wedge subunit; Provisional; Region: W; PHA02516 561230010365 baseplate assembly protein; Provisional; Region: J; PHA02568 561230010366 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 561230010367 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 561230010368 major tail sheath protein; Provisional; Region: FI; PHA02560 561230010369 major tail tube protein; Provisional; Region: FII; PHA02600 561230010370 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 561230010371 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 561230010372 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 561230010373 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 561230010374 tail protein; Provisional; Region: D; PHA02561 561230010375 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 561230010376 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 561230010377 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 561230010378 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 561230010379 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 561230010380 RimM N-terminal domain; Region: RimM; pfam01782 561230010381 PRC-barrel domain; Region: PRC; pfam05239 561230010382 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 561230010383 signal recognition particle protein; Provisional; Region: PRK10867 561230010384 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 561230010385 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 561230010386 P loop; other site 561230010387 GTP binding site [chemical binding]; other site 561230010388 Signal peptide binding domain; Region: SRP_SPB; pfam02978 561230010389 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 561230010390 S-ribosylhomocysteinase; Provisional; Region: PRK02260 561230010391 glutamate--cysteine ligase; Provisional; Region: PRK02107 561230010392 Predicted membrane protein [Function unknown]; Region: COG1238 561230010393 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 561230010394 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 561230010395 motif II; other site 561230010396 carbon storage regulator; Provisional; Region: PRK01712 561230010397 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 561230010398 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 561230010399 motif 1; other site 561230010400 active site 561230010401 motif 2; other site 561230010402 motif 3; other site 561230010403 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 561230010404 DHHA1 domain; Region: DHHA1; pfam02272 561230010405 recombination regulator RecX; Reviewed; Region: recX; PRK00117 561230010406 recombinase A; Provisional; Region: recA; PRK09354 561230010407 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 561230010408 hexamer interface [polypeptide binding]; other site 561230010409 Walker A motif; other site 561230010410 ATP binding site [chemical binding]; other site 561230010411 Walker B motif; other site 561230010412 hypothetical protein; Validated; Region: PRK03661 561230010413 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 561230010414 putative hydrophobic ligand binding site [chemical binding]; other site 561230010415 inner membrane protein; Provisional; Region: PRK10995 561230010416 Cache domain; Region: Cache_1; pfam02743 561230010417 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230010418 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230010419 metal binding site [ion binding]; metal-binding site 561230010420 active site 561230010421 I-site; other site 561230010422 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 561230010423 putative substrate translocation pore; other site 561230010424 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230010425 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230010426 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230010427 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 561230010428 putative effector binding pocket; other site 561230010429 dimerization interface [polypeptide binding]; other site 561230010430 glutaredoxin 2; Provisional; Region: PRK10387 561230010431 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 561230010432 C-terminal domain interface [polypeptide binding]; other site 561230010433 GSH binding site (G-site) [chemical binding]; other site 561230010434 catalytic residues [active] 561230010435 putative dimer interface [polypeptide binding]; other site 561230010436 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 561230010437 N-terminal domain interface [polypeptide binding]; other site 561230010438 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 561230010439 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 561230010440 active site 561230010441 TDP-binding site; other site 561230010442 acceptor substrate-binding pocket; other site 561230010443 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 561230010444 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 561230010445 substrate binding pocket [chemical binding]; other site 561230010446 active site 561230010447 iron coordination sites [ion binding]; other site 561230010448 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 561230010449 Barstar (barnase inhibitor); Region: Barstar; pfam01337 561230010450 RNAase interaction site [polypeptide binding]; other site 561230010451 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 561230010452 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561230010453 RHS Repeat; Region: RHS_repeat; cl11982 561230010454 RHS Repeat; Region: RHS_repeat; pfam05593 561230010455 RHS Repeat; Region: RHS_repeat; pfam05593 561230010456 RHS Repeat; Region: RHS_repeat; pfam05593 561230010457 RHS Repeat; Region: RHS_repeat; pfam05593 561230010458 RHS Repeat; Region: RHS_repeat; pfam05593 561230010459 RHS Repeat; Region: RHS_repeat; pfam05593 561230010460 RHS protein; Region: RHS; pfam03527 561230010461 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561230010462 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 561230010463 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 561230010464 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 561230010465 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561230010466 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 561230010467 Uncharacterized conserved protein [Function unknown]; Region: COG4104 561230010468 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561230010469 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561230010470 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561230010471 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561230010472 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 561230010473 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 561230010474 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 561230010475 ImpA domain protein; Region: DUF3702; pfam12486 561230010476 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 561230010477 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 561230010478 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 561230010479 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 561230010480 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 561230010481 type VI secretion-associated protein, VC_A0118 family; Region: VI_minor_1; TIGR03360 561230010482 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 561230010483 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 561230010484 Walker A motif; other site 561230010485 ATP binding site [chemical binding]; other site 561230010486 Walker B motif; other site 561230010487 arginine finger; other site 561230010488 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 561230010489 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 561230010490 Walker A motif; other site 561230010491 ATP binding site [chemical binding]; other site 561230010492 Walker B motif; other site 561230010493 arginine finger; other site 561230010494 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 561230010495 Walker A motif; other site 561230010496 ATP binding site [chemical binding]; other site 561230010497 Walker B motif; other site 561230010498 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 561230010499 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 561230010500 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 561230010501 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 561230010502 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 561230010503 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 561230010504 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 561230010505 phosphopeptide binding site; other site 561230010506 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 561230010507 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 561230010508 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 561230010509 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 561230010510 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 561230010511 Protein of unknown function (DUF877); Region: DUF877; pfam05943 561230010512 Protein of unknown function (DUF770); Region: DUF770; pfam05591 561230010513 CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE; Region: cas_TM1811_Csm1; TIGR02578 561230010514 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 561230010515 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 561230010516 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 561230010517 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 561230010518 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 561230010519 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 561230010520 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 561230010521 Fic/DOC family; Region: Fic; cl00960 561230010522 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 561230010523 Fic/DOC family; Region: Fic; cl00960 561230010524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 561230010525 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 561230010526 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 561230010527 active site 561230010528 metal binding site [ion binding]; metal-binding site 561230010529 interdomain interaction site; other site 561230010530 D5 N terminal like; Region: D5_N; smart00885 561230010531 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 561230010532 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 561230010533 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 561230010534 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 561230010535 HerA helicase [Replication, recombination, and repair]; Region: COG0433 561230010536 Domain of unknown function DUF87; Region: DUF87; pfam01935 561230010537 integrase; Provisional; Region: PRK09692 561230010538 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 561230010539 active site 561230010540 Int/Topo IB signature motif; other site 561230010541 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 561230010542 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 561230010543 putative catalytic cysteine [active] 561230010544 gamma-glutamyl kinase; Provisional; Region: PRK05429 561230010545 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 561230010546 nucleotide binding site [chemical binding]; other site 561230010547 homotetrameric interface [polypeptide binding]; other site 561230010548 putative phosphate binding site [ion binding]; other site 561230010549 putative allosteric binding site; other site 561230010550 PUA domain; Region: PUA; pfam01472 561230010551 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 561230010552 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 561230010553 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 561230010554 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561230010555 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 561230010556 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 561230010557 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 561230010558 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561230010559 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 561230010560 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561230010561 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 561230010562 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 561230010563 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561230010564 active site 561230010565 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 561230010566 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 561230010567 metal binding site [ion binding]; metal-binding site 561230010568 dimer interface [polypeptide binding]; other site 561230010569 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 561230010570 active site 561230010571 DNA polymerase IV; Validated; Region: PRK02406 561230010572 DNA binding site [nucleotide binding] 561230010573 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561230010574 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 561230010575 salt bridge; other site 561230010576 non-specific DNA binding site [nucleotide binding]; other site 561230010577 sequence-specific DNA binding site [nucleotide binding]; other site 561230010578 Methyltransferase domain; Region: Methyltransf_31; pfam13847 561230010579 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 561230010580 S-adenosylmethionine binding site [chemical binding]; other site 561230010581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 561230010582 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 561230010583 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 561230010584 putative active site [active] 561230010585 putative dimer interface [polypeptide binding]; other site 561230010586 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 561230010587 dimer interface [polypeptide binding]; other site 561230010588 active site 561230010589 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 561230010590 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 561230010591 active site 561230010592 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 561230010593 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 561230010594 active site 561230010595 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 561230010596 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 561230010597 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 561230010598 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 561230010599 Cupin domain; Region: Cupin_2; cl17218 561230010600 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 561230010601 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 561230010602 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 561230010603 intersubunit interface [polypeptide binding]; other site 561230010604 active site 561230010605 Zn2+ binding site [ion binding]; other site 561230010606 methionine aminotransferase; Validated; Region: PRK09082 561230010607 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 561230010608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230010609 homodimer interface [polypeptide binding]; other site 561230010610 catalytic residue [active] 561230010611 C-N hydrolase family amidase; Provisional; Region: PRK10438 561230010612 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 561230010613 putative active site [active] 561230010614 catalytic triad [active] 561230010615 dimer interface [polypeptide binding]; other site 561230010616 multimer interface [polypeptide binding]; other site 561230010617 sulfite reductase subunit beta; Provisional; Region: PRK13504 561230010618 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561230010619 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561230010620 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 561230010621 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 561230010622 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 561230010623 allantoate amidohydrolase; Reviewed; Region: PRK09290 561230010624 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 561230010625 active site 561230010626 metal binding site [ion binding]; metal-binding site 561230010627 dimer interface [polypeptide binding]; other site 561230010628 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 561230010629 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230010630 catalytic residue [active] 561230010631 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561230010632 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561230010633 Walker A/P-loop; other site 561230010634 ATP binding site [chemical binding]; other site 561230010635 Q-loop/lid; other site 561230010636 ABC transporter signature motif; other site 561230010637 Walker B; other site 561230010638 D-loop; other site 561230010639 H-loop/switch region; other site 561230010640 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 561230010641 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 561230010642 ABC-ATPase subunit interface; other site 561230010643 putative PBP binding loops; other site 561230010644 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230010645 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 561230010646 dimer interface [polypeptide binding]; other site 561230010647 conserved gate region; other site 561230010648 putative PBP binding loops; other site 561230010649 ABC-ATPase subunit interface; other site 561230010650 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561230010651 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 561230010652 substrate binding pocket [chemical binding]; other site 561230010653 membrane-bound complex binding site; other site 561230010654 hinge residues; other site 561230010655 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 561230010656 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 561230010657 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 561230010658 putative active site [active] 561230010659 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 561230010660 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 561230010661 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 561230010662 amidase; Provisional; Region: PRK09201 561230010663 Amidase; Region: Amidase; cl11426 561230010664 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 561230010665 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 561230010666 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561230010667 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 561230010668 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 561230010669 Walker A/P-loop; other site 561230010670 ATP binding site [chemical binding]; other site 561230010671 Q-loop/lid; other site 561230010672 ABC transporter signature motif; other site 561230010673 Walker B; other site 561230010674 D-loop; other site 561230010675 H-loop/switch region; other site 561230010676 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 561230010677 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 561230010678 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 561230010679 dimer interface [polypeptide binding]; other site 561230010680 conserved gate region; other site 561230010681 putative PBP binding loops; other site 561230010682 ABC-ATPase subunit interface; other site 561230010683 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 561230010684 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 561230010685 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 561230010686 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 561230010687 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 561230010688 CGNR zinc finger; Region: zf-CGNR; pfam11706 561230010689 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561230010690 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561230010691 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 561230010692 putative substrate translocation pore; other site 561230010693 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 561230010694 putative L-valine exporter; Provisional; Region: PRK10408 561230010695 transcriptional repressor MprA; Provisional; Region: PRK10870 561230010696 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561230010697 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 561230010698 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230010699 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230010700 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 561230010701 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 561230010702 putative substrate translocation pore; other site 561230010703 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 561230010704 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 561230010705 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 561230010706 Nucleoside recognition; Region: Gate; pfam07670 561230010707 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 561230010708 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 561230010709 putative methyltransferase; Provisional; Region: PRK10864 561230010710 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 561230010711 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561230010712 thioredoxin 2; Provisional; Region: PRK10996 561230010713 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 561230010714 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 561230010715 catalytic residues [active] 561230010716 Uncharacterized conserved protein [Function unknown]; Region: COG3148 561230010717 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 561230010718 CoA binding domain; Region: CoA_binding_2; pfam13380 561230010719 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 561230010720 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 561230010721 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561230010722 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 561230010723 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 561230010724 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 561230010725 domain interface [polypeptide binding]; other site 561230010726 putative active site [active] 561230010727 catalytic site [active] 561230010728 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 561230010729 domain interface [polypeptide binding]; other site 561230010730 putative active site [active] 561230010731 catalytic site [active] 561230010732 lipoprotein; Provisional; Region: PRK10759 561230010733 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 561230010734 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 561230010735 putative substrate translocation pore; other site 561230010736 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 561230010737 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 561230010738 active site 561230010739 motif I; other site 561230010740 motif II; other site 561230010741 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 561230010742 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 561230010743 Walker A/P-loop; other site 561230010744 ATP binding site [chemical binding]; other site 561230010745 Q-loop/lid; other site 561230010746 ABC transporter signature motif; other site 561230010747 Walker B; other site 561230010748 D-loop; other site 561230010749 H-loop/switch region; other site 561230010750 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 561230010751 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 561230010752 dimer interface [polypeptide binding]; other site 561230010753 conserved gate region; other site 561230010754 ABC-ATPase subunit interface; other site 561230010755 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 561230010756 lipoprotein, YaeC family; Region: TIGR00363 561230010757 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 561230010758 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 561230010759 homodimer interaction site [polypeptide binding]; other site 561230010760 cofactor binding site; other site 561230010761 prolyl-tRNA synthetase; Provisional; Region: PRK09194 561230010762 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 561230010763 dimer interface [polypeptide binding]; other site 561230010764 motif 1; other site 561230010765 active site 561230010766 motif 2; other site 561230010767 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 561230010768 putative deacylase active site [active] 561230010769 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 561230010770 active site 561230010771 motif 3; other site 561230010772 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 561230010773 anticodon binding site; other site 561230010774 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 561230010775 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 561230010776 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230010777 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 561230010778 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 561230010779 DNA binding residues [nucleotide binding] 561230010780 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 561230010781 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561230010782 Peptidase family M23; Region: Peptidase_M23; pfam01551 561230010783 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 561230010784 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 561230010785 S-adenosylmethionine binding site [chemical binding]; other site 561230010786 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 561230010787 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 561230010788 Permutation of conserved domain; other site 561230010789 active site 561230010790 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 561230010791 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 561230010792 homotrimer interaction site [polypeptide binding]; other site 561230010793 zinc binding site [ion binding]; other site 561230010794 CDP-binding sites; other site 561230010795 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 561230010796 substrate binding site; other site 561230010797 dimer interface; other site 561230010798 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 561230010799 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 561230010800 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 561230010801 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561230010802 substrate binding pocket [chemical binding]; other site 561230010803 membrane-bound complex binding site; other site 561230010804 hinge residues; other site 561230010805 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 561230010806 dimer interface [polypeptide binding]; other site 561230010807 conserved gate region; other site 561230010808 putative PBP binding loops; other site 561230010809 ABC-ATPase subunit interface; other site 561230010810 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561230010811 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561230010812 Walker A/P-loop; other site 561230010813 ATP binding site [chemical binding]; other site 561230010814 Q-loop/lid; other site 561230010815 ABC transporter signature motif; other site 561230010816 Walker B; other site 561230010817 D-loop; other site 561230010818 H-loop/switch region; other site 561230010819 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 561230010820 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 561230010821 ligand-binding site [chemical binding]; other site 561230010822 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 561230010823 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 561230010824 CysD dimerization site [polypeptide binding]; other site 561230010825 G1 box; other site 561230010826 putative GEF interaction site [polypeptide binding]; other site 561230010827 GTP/Mg2+ binding site [chemical binding]; other site 561230010828 Switch I region; other site 561230010829 G2 box; other site 561230010830 G3 box; other site 561230010831 Switch II region; other site 561230010832 G4 box; other site 561230010833 G5 box; other site 561230010834 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 561230010835 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 561230010836 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 561230010837 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 561230010838 Active Sites [active] 561230010839 siroheme synthase; Provisional; Region: cysG; PRK10637 561230010840 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 561230010841 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 561230010842 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 561230010843 active site 561230010844 SAM binding site [chemical binding]; other site 561230010845 homodimer interface [polypeptide binding]; other site 561230010846 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 561230010847 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 561230010848 Active Sites [active] 561230010849 sulfite reductase subunit beta; Provisional; Region: PRK13504 561230010850 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561230010851 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561230010852 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 561230010853 Flavodoxin; Region: Flavodoxin_1; pfam00258 561230010854 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 561230010855 FAD binding pocket [chemical binding]; other site 561230010856 FAD binding motif [chemical binding]; other site 561230010857 catalytic residues [active] 561230010858 NAD binding pocket [chemical binding]; other site 561230010859 phosphate binding motif [ion binding]; other site 561230010860 beta-alpha-beta structure motif; other site 561230010861 PilZ domain; Region: PilZ; pfam07238 561230010862 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561230010863 Zn2+ binding site [ion binding]; other site 561230010864 Mg2+ binding site [ion binding]; other site 561230010865 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 561230010866 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 561230010867 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561230010868 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561230010869 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 561230010870 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 561230010871 active site 561230010872 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 561230010873 dimer interface [polypeptide binding]; other site 561230010874 substrate binding site [chemical binding]; other site 561230010875 metal binding sites [ion binding]; metal-binding site 561230010876 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 561230010877 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 561230010878 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 561230010879 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230010880 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230010881 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 561230010882 putative substrate binding pocket [chemical binding]; other site 561230010883 putative dimerization interface [polypeptide binding]; other site 561230010884 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 561230010885 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 561230010886 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 561230010887 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 561230010888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230010889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230010890 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 561230010891 dimerization interface [polypeptide binding]; other site 561230010892 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 561230010893 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 561230010894 NAD(P) binding site [chemical binding]; other site 561230010895 catalytic residues [active] 561230010896 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 561230010897 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 561230010898 potential catalytic triad [active] 561230010899 conserved cys residue [active] 561230010900 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 561230010901 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 561230010902 putative ligand binding residues [chemical binding]; other site 561230010903 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561230010904 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 561230010905 N-terminal plug; other site 561230010906 ligand-binding site [chemical binding]; other site 561230010907 enolase; Provisional; Region: eno; PRK00077 561230010908 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 561230010909 dimer interface [polypeptide binding]; other site 561230010910 metal binding site [ion binding]; metal-binding site 561230010911 substrate binding pocket [chemical binding]; other site 561230010912 CTP synthetase; Validated; Region: pyrG; PRK05380 561230010913 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 561230010914 Catalytic site [active] 561230010915 active site 561230010916 UTP binding site [chemical binding]; other site 561230010917 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 561230010918 active site 561230010919 putative oxyanion hole; other site 561230010920 catalytic triad [active] 561230010921 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 561230010922 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 561230010923 homodimer interface [polypeptide binding]; other site 561230010924 metal binding site [ion binding]; metal-binding site 561230010925 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 561230010926 homodimer interface [polypeptide binding]; other site 561230010927 active site 561230010928 putative chemical substrate binding site [chemical binding]; other site 561230010929 metal binding site [ion binding]; metal-binding site 561230010930 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 561230010931 HD domain; Region: HD_4; pfam13328 561230010932 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 561230010933 synthetase active site [active] 561230010934 NTP binding site [chemical binding]; other site 561230010935 metal binding site [ion binding]; metal-binding site 561230010936 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 561230010937 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 561230010938 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 561230010939 TRAM domain; Region: TRAM; pfam01938 561230010940 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 561230010941 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 561230010942 S-adenosylmethionine binding site [chemical binding]; other site 561230010943 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 561230010944 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 561230010945 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 561230010946 dimerization interface [polypeptide binding]; other site 561230010947 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 561230010948 dimer interface [polypeptide binding]; other site 561230010949 phosphorylation site [posttranslational modification] 561230010950 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 561230010951 ATP binding site [chemical binding]; other site 561230010952 Mg2+ binding site [ion binding]; other site 561230010953 G-X-G motif; other site 561230010954 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 561230010955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230010956 active site 561230010957 phosphorylation site [posttranslational modification] 561230010958 intermolecular recognition site; other site 561230010959 dimerization interface [polypeptide binding]; other site 561230010960 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 561230010961 putative binding surface; other site 561230010962 active site 561230010963 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 561230010964 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 561230010965 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 561230010966 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 561230010967 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 561230010968 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 561230010969 active site 561230010970 tetramer interface [polypeptide binding]; other site 561230010971 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 561230010972 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 561230010973 active site 561230010974 tetramer interface [polypeptide binding]; other site 561230010975 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 561230010976 D-galactonate transporter; Region: 2A0114; TIGR00893 561230010977 putative substrate translocation pore; other site 561230010978 galactarate dehydratase; Region: galactar-dH20; TIGR03248 561230010979 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 561230010980 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 561230010981 PAS domain; Region: PAS_9; pfam13426 561230010982 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 561230010983 putative active site [active] 561230010984 heme pocket [chemical binding]; other site 561230010985 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 561230010986 dimerization interface [polypeptide binding]; other site 561230010987 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561230010988 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230010989 dimer interface [polypeptide binding]; other site 561230010990 putative CheW interface [polypeptide binding]; other site 561230010991 SlyX; Region: SlyX; cl01090 561230010992 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 561230010993 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 561230010994 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 561230010995 nucleotide binding pocket [chemical binding]; other site 561230010996 K-X-D-G motif; other site 561230010997 catalytic site [active] 561230010998 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 561230010999 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 561230011000 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 561230011001 DNA binding site [nucleotide binding] 561230011002 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 561230011003 Dimer interface [polypeptide binding]; other site 561230011004 BRCT sequence motif; other site 561230011005 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 561230011006 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 561230011007 putative ribose interaction site [chemical binding]; other site 561230011008 putative ADP binding site [chemical binding]; other site 561230011009 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 561230011010 active site 561230011011 nucleotide binding site [chemical binding]; other site 561230011012 HIGH motif; other site 561230011013 KMSKS motif; other site 561230011014 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 561230011015 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 561230011016 metal binding triad; other site 561230011017 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 561230011018 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 561230011019 metal binding triad; other site 561230011020 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 561230011021 Uncharacterized conserved protein [Function unknown]; Region: COG3025 561230011022 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 561230011023 putative active site [active] 561230011024 putative metal binding residues [ion binding]; other site 561230011025 signature motif; other site 561230011026 putative triphosphate binding site [ion binding]; other site 561230011027 SH3 domain-containing protein; Provisional; Region: PRK10884 561230011028 Bacterial SH3 domain homologues; Region: SH3b; smart00287 561230011029 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 561230011030 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 561230011031 active site 561230011032 NTP binding site [chemical binding]; other site 561230011033 metal binding triad [ion binding]; metal-binding site 561230011034 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 561230011035 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561230011036 Zn2+ binding site [ion binding]; other site 561230011037 Mg2+ binding site [ion binding]; other site 561230011038 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 561230011039 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 561230011040 homooctamer interface [polypeptide binding]; other site 561230011041 active site 561230011042 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 561230011043 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561230011044 dimer interface [polypeptide binding]; other site 561230011045 ligand binding site [chemical binding]; other site 561230011046 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 561230011047 dimerization interface [polypeptide binding]; other site 561230011048 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230011049 dimer interface [polypeptide binding]; other site 561230011050 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561230011051 putative CheW interface [polypeptide binding]; other site 561230011052 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 561230011053 dimer interface [polypeptide binding]; other site 561230011054 substrate binding site [chemical binding]; other site 561230011055 metal binding sites [ion binding]; metal-binding site 561230011056 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 561230011057 putative active site pocket [active] 561230011058 dimerization interface [polypeptide binding]; other site 561230011059 putative catalytic residue [active] 561230011060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 561230011061 Family of unknown function (DUF490); Region: DUF490; pfam04357 561230011062 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 561230011063 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561230011064 Surface antigen; Region: Bac_surface_Ag; pfam01103 561230011065 methionine sulfoxide reductase A; Provisional; Region: PRK00058 561230011066 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 561230011067 Domain of unknown function DUF21; Region: DUF21; pfam01595 561230011068 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 561230011069 Transporter associated domain; Region: CorC_HlyC; smart01091 561230011070 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 561230011071 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 561230011072 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 561230011073 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 561230011074 active site 561230011075 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 561230011076 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 561230011077 active site 561230011078 metal binding site [ion binding]; metal-binding site 561230011079 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 561230011080 Predicted transcriptional regulators [Transcription]; Region: COG1733 561230011081 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 561230011082 dimerization interface [polypeptide binding]; other site 561230011083 putative DNA binding site [nucleotide binding]; other site 561230011084 putative Zn2+ binding site [ion binding]; other site 561230011085 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 561230011086 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561230011087 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 561230011088 indolepyruvate decarboxylase, Erwinia family; Region: indolpyr_decarb; TIGR03393 561230011089 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 561230011090 dimer interface [polypeptide binding]; other site 561230011091 PYR/PP interface [polypeptide binding]; other site 561230011092 TPP binding site [chemical binding]; other site 561230011093 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561230011094 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 561230011095 TPP-binding site [chemical binding]; other site 561230011096 dimer interface [polypeptide binding]; other site 561230011097 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 561230011098 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 561230011099 Hemerythrin-like domain; Region: Hr-like; cd12108 561230011100 Fe binding site [ion binding]; other site 561230011101 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 561230011102 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 561230011103 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561230011104 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 561230011105 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 561230011106 Protein of unknown function, DUF488; Region: DUF488; cl01246 561230011107 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 561230011108 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 561230011109 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 561230011110 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 561230011111 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 561230011112 dimer interface [polypeptide binding]; other site 561230011113 ssDNA binding site [nucleotide binding]; other site 561230011114 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561230011115 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 561230011116 esterase; Provisional; Region: PRK10566 561230011117 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561230011118 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 561230011119 dimerization interface [polypeptide binding]; other site 561230011120 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230011121 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561230011122 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230011123 dimer interface [polypeptide binding]; other site 561230011124 putative CheW interface [polypeptide binding]; other site 561230011125 hypothetical protein; Reviewed; Region: PRK09588 561230011126 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 561230011127 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 561230011128 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 561230011129 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 561230011130 Predicted membrane protein [Function unknown]; Region: COG3766 561230011131 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 561230011132 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 561230011133 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230011134 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 561230011135 dimerization interface [polypeptide binding]; other site 561230011136 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230011137 dimer interface [polypeptide binding]; other site 561230011138 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561230011139 putative CheW interface [polypeptide binding]; other site 561230011140 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 561230011141 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 561230011142 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561230011143 exoribonuclease R; Provisional; Region: PRK11642 561230011144 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 561230011145 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 561230011146 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 561230011147 RNB domain; Region: RNB; pfam00773 561230011148 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 561230011149 RNA binding site [nucleotide binding]; other site 561230011150 transcriptional repressor NsrR; Provisional; Region: PRK11014 561230011151 Rrf2 family protein; Region: rrf2_super; TIGR00738 561230011152 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230011153 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561230011154 dimer interface [polypeptide binding]; other site 561230011155 ligand binding site [chemical binding]; other site 561230011156 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 561230011157 dimerization interface [polypeptide binding]; other site 561230011158 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561230011159 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230011160 dimer interface [polypeptide binding]; other site 561230011161 putative CheW interface [polypeptide binding]; other site 561230011162 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 561230011163 PAS domain; Region: PAS_9; pfam13426 561230011164 putative active site [active] 561230011165 heme pocket [chemical binding]; other site 561230011166 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 561230011167 PAS domain; Region: PAS_9; pfam13426 561230011168 putative active site [active] 561230011169 heme pocket [chemical binding]; other site 561230011170 GAF domain; Region: GAF_2; pfam13185 561230011171 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230011172 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230011173 metal binding site [ion binding]; metal-binding site 561230011174 active site 561230011175 I-site; other site 561230011176 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 561230011177 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 561230011178 Walker A motif; other site 561230011179 ATP binding site [chemical binding]; other site 561230011180 Walker B motif; other site 561230011181 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 561230011182 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561230011183 catalytic residue [active] 561230011184 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 561230011185 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 561230011186 YGGT family; Region: YGGT; pfam02325 561230011187 Predicted integral membrane protein [Function unknown]; Region: COG0762 561230011188 hypothetical protein; Validated; Region: PRK05090 561230011189 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 561230011190 active site 561230011191 dimerization interface [polypeptide binding]; other site 561230011192 HemN family oxidoreductase; Provisional; Region: PRK05660 561230011193 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 561230011194 FeS/SAM binding site; other site 561230011195 HemN C-terminal domain; Region: HemN_C; pfam06969 561230011196 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 561230011197 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 561230011198 entericidin A; Provisional; Region: PRK09810 561230011199 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230011200 Coenzyme A binding pocket [chemical binding]; other site 561230011201 lysophospholipid transporter LplT; Provisional; Region: PRK11195 561230011202 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 561230011203 putative substrate translocation pore; other site 561230011204 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 561230011205 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 561230011206 putative acyl-acceptor binding pocket; other site 561230011207 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 561230011208 acyl-activating enzyme (AAE) consensus motif; other site 561230011209 putative AMP binding site [chemical binding]; other site 561230011210 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 561230011211 HAMP domain; Region: HAMP; pfam00672 561230011212 dimerization interface [polypeptide binding]; other site 561230011213 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230011214 dimer interface [polypeptide binding]; other site 561230011215 putative CheW interface [polypeptide binding]; other site 561230011216 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230011217 Coenzyme A binding pocket [chemical binding]; other site 561230011218 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 561230011219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230011220 DNA-binding site [nucleotide binding]; DNA binding site 561230011221 FCD domain; Region: FCD; pfam07729 561230011222 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 561230011223 active site 561230011224 P-loop; other site 561230011225 phosphorylation site [posttranslational modification] 561230011226 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 561230011227 beta-galactosidase; Region: BGL; TIGR03356 561230011228 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 561230011229 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 561230011230 methionine cluster; other site 561230011231 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 561230011232 active site 561230011233 phosphorylation site [posttranslational modification] 561230011234 metal binding site [ion binding]; metal-binding site 561230011235 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230011236 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230011237 DNA binding site [nucleotide binding] 561230011238 domain linker motif; other site 561230011239 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 561230011240 dimerization interface (closed form) [polypeptide binding]; other site 561230011241 ligand binding site [chemical binding]; other site 561230011242 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 561230011243 putative substrate translocation pore; other site 561230011244 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230011245 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 561230011246 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 561230011247 dimer interface [polypeptide binding]; other site 561230011248 ADP-ribose binding site [chemical binding]; other site 561230011249 active site 561230011250 nudix motif; other site 561230011251 metal binding site [ion binding]; metal-binding site 561230011252 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561230011253 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 561230011254 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 561230011255 motif II; other site 561230011256 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 561230011257 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 561230011258 Fatty acid desaturase; Region: FA_desaturase; pfam00487 561230011259 putative di-iron ligands [ion binding]; other site 561230011260 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 561230011261 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 561230011262 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 561230011263 motif II; other site 561230011264 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 561230011265 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 561230011266 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561230011267 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 561230011268 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230011269 catalytic residue [active] 561230011270 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 561230011271 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 561230011272 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230011273 catalytic residue [active] 561230011274 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 561230011275 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 561230011276 inhibitor-cofactor binding pocket; inhibition site 561230011277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230011278 catalytic residue [active] 561230011279 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561230011280 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561230011281 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 561230011282 nudix motif; other site 561230011283 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 561230011284 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561230011285 non-specific DNA binding site [nucleotide binding]; other site 561230011286 salt bridge; other site 561230011287 sequence-specific DNA binding site [nucleotide binding]; other site 561230011288 Cupin domain; Region: Cupin_2; cl17218 561230011289 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 561230011290 EamA-like transporter family; Region: EamA; pfam00892 561230011291 EamA-like transporter family; Region: EamA; pfam00892 561230011292 diaminopimelate decarboxylase; Provisional; Region: PRK11165 561230011293 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 561230011294 active site 561230011295 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561230011296 substrate binding site [chemical binding]; other site 561230011297 catalytic residues [active] 561230011298 dimer interface [polypeptide binding]; other site 561230011299 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 561230011300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230011301 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 561230011302 dimerization interface [polypeptide binding]; other site 561230011303 transcriptional activator TtdR; Provisional; Region: PRK09801 561230011304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230011305 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 561230011306 putative effector binding pocket; other site 561230011307 dimerization interface [polypeptide binding]; other site 561230011308 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 561230011309 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 561230011310 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 561230011311 catalytic residues [active] 561230011312 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 561230011313 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 561230011314 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 561230011315 FMN binding site [chemical binding]; other site 561230011316 active site 561230011317 catalytic residues [active] 561230011318 substrate binding site [chemical binding]; other site 561230011319 phage shock protein G; Reviewed; Region: pspG; PRK09459 561230011320 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 561230011321 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 561230011322 NADP binding site [chemical binding]; other site 561230011323 dimer interface [polypeptide binding]; other site 561230011324 replicative DNA helicase; Provisional; Region: PRK08006 561230011325 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 561230011326 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 561230011327 Walker A motif; other site 561230011328 ATP binding site [chemical binding]; other site 561230011329 Walker B motif; other site 561230011330 DNA binding loops [nucleotide binding] 561230011331 alanine racemase; Reviewed; Region: alr; PRK00053 561230011332 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 561230011333 active site 561230011334 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561230011335 substrate binding site [chemical binding]; other site 561230011336 catalytic residues [active] 561230011337 dimer interface [polypeptide binding]; other site 561230011338 aromatic amino acid transporter; Provisional; Region: PRK10238 561230011339 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 561230011340 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 561230011341 putative DNA binding site [nucleotide binding]; other site 561230011342 putative Zn2+ binding site [ion binding]; other site 561230011343 AsnC family; Region: AsnC_trans_reg; pfam01037 561230011344 Uncharacterized conserved protein [Function unknown]; Region: COG1284 561230011345 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 561230011346 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 561230011347 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 561230011348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230011349 homodimer interface [polypeptide binding]; other site 561230011350 catalytic residue [active] 561230011351 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 561230011352 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561230011353 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 561230011354 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 561230011355 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 561230011356 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 561230011357 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 561230011358 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 561230011359 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 561230011360 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 561230011361 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 561230011362 dimer interface [polypeptide binding]; other site 561230011363 ssDNA binding site [nucleotide binding]; other site 561230011364 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561230011365 putative single-stranded DNA-binding protein; Region: PHA01740 561230011366 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 561230011367 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 561230011368 active site 561230011369 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561230011370 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230011371 Coenzyme A binding pocket [chemical binding]; other site 561230011372 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 561230011373 Uncharacterized conserved protein [Function unknown]; Region: COG2128 561230011374 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 561230011375 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230011376 DNA-binding site [nucleotide binding]; DNA binding site 561230011377 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 561230011378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230011379 homodimer interface [polypeptide binding]; other site 561230011380 catalytic residue [active] 561230011381 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230011382 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230011383 DNA binding site [nucleotide binding] 561230011384 domain linker motif; other site 561230011385 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 561230011386 ligand binding site [chemical binding]; other site 561230011387 dimerization interface [polypeptide binding]; other site 561230011388 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561230011389 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 561230011390 dimer interface [polypeptide binding]; other site 561230011391 conserved gate region; other site 561230011392 putative PBP binding loops; other site 561230011393 ABC-ATPase subunit interface; other site 561230011394 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561230011395 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 561230011396 ABC-ATPase subunit interface; other site 561230011397 putative PBP binding loops; other site 561230011398 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561230011399 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561230011400 Walker A/P-loop; other site 561230011401 ATP binding site [chemical binding]; other site 561230011402 Q-loop/lid; other site 561230011403 ABC transporter signature motif; other site 561230011404 Walker B; other site 561230011405 D-loop; other site 561230011406 H-loop/switch region; other site 561230011407 TOBE domain; Region: TOBE_2; pfam08402 561230011408 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 561230011409 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561230011410 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 561230011411 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 561230011412 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 561230011413 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 561230011414 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 561230011415 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561230011416 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 561230011417 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561230011418 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 561230011419 ABC-ATPase subunit interface; other site 561230011420 dimer interface [polypeptide binding]; other site 561230011421 putative PBP binding regions; other site 561230011422 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 561230011423 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 561230011424 metal binding site [ion binding]; metal-binding site 561230011425 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 561230011426 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561230011427 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 561230011428 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561230011429 4-hydroxythreonine-4-phosphate dehydrogenase 2; Provisional; Region: pdxA; PRK03371 561230011430 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 561230011431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 561230011432 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 561230011433 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 561230011434 putative active site [active] 561230011435 metal binding site [ion binding]; metal-binding site 561230011436 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 561230011437 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 561230011438 inhibitor site; inhibition site 561230011439 active site 561230011440 dimer interface [polypeptide binding]; other site 561230011441 catalytic residue [active] 561230011442 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 561230011443 Na binding site [ion binding]; other site 561230011444 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 561230011445 BNR repeat-like domain; Region: BNR_2; pfam13088 561230011446 Domain of unknown function (DUF386); Region: DUF386; cl01047 561230011447 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 561230011448 classical (c) SDRs; Region: SDR_c; cd05233 561230011449 NAD(P) binding site [chemical binding]; other site 561230011450 active site 561230011451 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 561230011452 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 561230011453 dimer interface [polypeptide binding]; other site 561230011454 active site 561230011455 glycine loop; other site 561230011456 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 561230011457 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 561230011458 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 561230011459 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 561230011460 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230011461 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230011462 DNA binding site [nucleotide binding] 561230011463 domain linker motif; other site 561230011464 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230011465 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230011466 DNA binding site [nucleotide binding] 561230011467 domain linker motif; other site 561230011468 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 561230011469 putative ligand binding site [chemical binding]; other site 561230011470 putative dimerization interface [polypeptide binding]; other site 561230011471 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 561230011472 active site 561230011473 phosphorylation site [posttranslational modification] 561230011474 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 561230011475 active site 561230011476 P-loop; other site 561230011477 phosphorylation site [posttranslational modification] 561230011478 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 561230011479 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 561230011480 active site 561230011481 intersubunit interactions; other site 561230011482 catalytic residue [active] 561230011483 hypothetical protein; Provisional; Region: PRK05248 561230011484 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 561230011485 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 561230011486 substrate binding site [chemical binding]; other site 561230011487 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 561230011488 substrate binding site [chemical binding]; other site 561230011489 ligand binding site [chemical binding]; other site 561230011490 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 561230011491 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 561230011492 hypothetical protein; Reviewed; Region: PRK09588 561230011493 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 561230011494 dimerization interface [polypeptide binding]; other site 561230011495 putative DNA binding site [nucleotide binding]; other site 561230011496 putative Zn2+ binding site [ion binding]; other site 561230011497 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230011498 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230011499 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 561230011500 Abhydrolase family; Region: Abhydrolase_7; pfam12715 561230011501 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561230011502 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561230011503 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 561230011504 putative substrate translocation pore; other site 561230011505 Beta-lactamase; Region: Beta-lactamase; pfam00144 561230011506 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 561230011507 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230011508 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230011509 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 561230011510 putative dimerization interface [polypeptide binding]; other site 561230011511 putative effector binding pocket; other site 561230011512 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 561230011513 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561230011514 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230011515 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 561230011516 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 561230011517 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 561230011518 E3 interaction surface; other site 561230011519 lipoyl attachment site [posttranslational modification]; other site 561230011520 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 561230011521 E3 interaction surface; other site 561230011522 lipoyl attachment site [posttranslational modification]; other site 561230011523 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 561230011524 E3 interaction surface; other site 561230011525 lipoyl attachment site [posttranslational modification]; other site 561230011526 e3 binding domain; Region: E3_binding; pfam02817 561230011527 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 561230011528 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 561230011529 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 561230011530 dimer interface [polypeptide binding]; other site 561230011531 TPP-binding site [chemical binding]; other site 561230011532 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 561230011533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230011534 DNA-binding site [nucleotide binding]; DNA binding site 561230011535 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 561230011536 aromatic amino acid transporter; Provisional; Region: PRK10238 561230011537 regulatory protein AmpE; Provisional; Region: PRK10987 561230011538 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 561230011539 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 561230011540 amidase catalytic site [active] 561230011541 Zn binding residues [ion binding]; other site 561230011542 substrate binding site [chemical binding]; other site 561230011543 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 561230011544 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 561230011545 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 561230011546 dimerization interface [polypeptide binding]; other site 561230011547 active site 561230011548 putative major pilin subunit; Provisional; Region: PRK10574 561230011549 Pilin (bacterial filament); Region: Pilin; pfam00114 561230011550 hypothetical protein; Provisional; Region: PRK10436 561230011551 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 561230011552 Walker A motif; other site 561230011553 ATP binding site [chemical binding]; other site 561230011554 Walker B motif; other site 561230011555 type IV pilin biogenesis protein; Provisional; Region: PRK10573 561230011556 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561230011557 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561230011558 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 561230011559 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 561230011560 active site 561230011561 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 561230011562 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 561230011563 CoA-binding site [chemical binding]; other site 561230011564 ATP-binding [chemical binding]; other site 561230011565 hypothetical protein; Provisional; Region: PRK05287 561230011566 DNA gyrase inhibitor; Reviewed; Region: PRK00418 561230011567 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 561230011568 active site 561230011569 8-oxo-dGMP binding site [chemical binding]; other site 561230011570 nudix motif; other site 561230011571 metal binding site [ion binding]; metal-binding site 561230011572 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 561230011573 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 561230011574 SEC-C motif; Region: SEC-C; pfam02810 561230011575 SecA regulator SecM; Provisional; Region: PRK02943 561230011576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4701 561230011577 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 561230011578 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 561230011579 cell division protein FtsZ; Validated; Region: PRK09330 561230011580 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 561230011581 nucleotide binding site [chemical binding]; other site 561230011582 SulA interaction site; other site 561230011583 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 561230011584 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561230011585 Cell division protein FtsA; Region: FtsA; pfam14450 561230011586 cell division protein FtsQ; Provisional; Region: PRK10775 561230011587 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 561230011588 Cell division protein FtsQ; Region: FtsQ; pfam03799 561230011589 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 561230011590 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 561230011591 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 561230011592 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 561230011593 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561230011594 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561230011595 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561230011596 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 561230011597 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 561230011598 active site 561230011599 homodimer interface [polypeptide binding]; other site 561230011600 cell division protein FtsW; Provisional; Region: PRK10774 561230011601 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 561230011602 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561230011603 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561230011604 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 561230011605 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 561230011606 Mg++ binding site [ion binding]; other site 561230011607 putative catalytic motif [active] 561230011608 putative substrate binding site [chemical binding]; other site 561230011609 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 561230011610 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561230011611 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561230011612 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561230011613 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 561230011614 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561230011615 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561230011616 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561230011617 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 561230011618 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 561230011619 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 561230011620 cell division protein FtsL; Provisional; Region: PRK10772 561230011621 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 561230011622 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 561230011623 cell division protein MraZ; Reviewed; Region: PRK00326 561230011624 MraZ protein; Region: MraZ; pfam02381 561230011625 MraZ protein; Region: MraZ; pfam02381 561230011626 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 561230011627 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 561230011628 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230011629 DNA binding site [nucleotide binding] 561230011630 domain linker motif; other site 561230011631 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 561230011632 dimerization interface [polypeptide binding]; other site 561230011633 ligand binding site [chemical binding]; other site 561230011634 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 561230011635 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 561230011636 putative valine binding site [chemical binding]; other site 561230011637 dimer interface [polypeptide binding]; other site 561230011638 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 561230011639 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 561230011640 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561230011641 PYR/PP interface [polypeptide binding]; other site 561230011642 dimer interface [polypeptide binding]; other site 561230011643 TPP binding site [chemical binding]; other site 561230011644 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561230011645 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 561230011646 TPP-binding site [chemical binding]; other site 561230011647 dimer interface [polypeptide binding]; other site 561230011648 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 561230011649 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561230011650 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 561230011651 acyl-activating enzyme (AAE) consensus motif; other site 561230011652 putative AMP binding site [chemical binding]; other site 561230011653 putative active site [active] 561230011654 putative CoA binding site [chemical binding]; other site 561230011655 2-isopropylmalate synthase; Validated; Region: PRK00915 561230011656 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 561230011657 active site 561230011658 catalytic residues [active] 561230011659 metal binding site [ion binding]; metal-binding site 561230011660 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 561230011661 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 561230011662 tartrate dehydrogenase; Region: TTC; TIGR02089 561230011663 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 561230011664 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 561230011665 substrate binding site [chemical binding]; other site 561230011666 ligand binding site [chemical binding]; other site 561230011667 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 561230011668 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 561230011669 substrate binding site [chemical binding]; other site 561230011670 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 561230011671 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 561230011672 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561230011673 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230011674 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230011675 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561230011676 dimer interface [polypeptide binding]; other site 561230011677 ligand binding site [chemical binding]; other site 561230011678 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 561230011679 dimerization interface [polypeptide binding]; other site 561230011680 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230011681 dimer interface [polypeptide binding]; other site 561230011682 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561230011683 putative CheW interface [polypeptide binding]; other site 561230011684 transcriptional regulator SgrR; Provisional; Region: PRK13626 561230011685 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 561230011686 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 561230011687 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 561230011688 NmrA-like family; Region: NmrA; pfam05368 561230011689 NAD(P) binding site [chemical binding]; other site 561230011690 active site lysine 561230011691 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230011692 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230011693 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 561230011694 putative effector binding pocket; other site 561230011695 putative dimerization interface [polypeptide binding]; other site 561230011696 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 561230011697 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 561230011698 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 561230011699 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 561230011700 dimer interface [polypeptide binding]; other site 561230011701 conserved gate region; other site 561230011702 putative PBP binding loops; other site 561230011703 ABC-ATPase subunit interface; other site 561230011704 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 561230011705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230011706 Walker A/P-loop; other site 561230011707 ATP binding site [chemical binding]; other site 561230011708 Q-loop/lid; other site 561230011709 ABC transporter signature motif; other site 561230011710 Walker B; other site 561230011711 D-loop; other site 561230011712 H-loop/switch region; other site 561230011713 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 561230011714 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_3; cd09002 561230011715 active site 561230011716 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 561230011717 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561230011718 PYR/PP interface [polypeptide binding]; other site 561230011719 dimer interface [polypeptide binding]; other site 561230011720 TPP binding site [chemical binding]; other site 561230011721 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561230011722 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 561230011723 TPP-binding site [chemical binding]; other site 561230011724 dimer interface [polypeptide binding]; other site 561230011725 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 561230011726 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 561230011727 putative valine binding site [chemical binding]; other site 561230011728 dimer interface [polypeptide binding]; other site 561230011729 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561230011730 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 561230011731 Cache domain; Region: Cache_1; pfam02743 561230011732 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230011733 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230011734 metal binding site [ion binding]; metal-binding site 561230011735 active site 561230011736 I-site; other site 561230011737 DNA polymerase II; Reviewed; Region: PRK05762 561230011738 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 561230011739 active site 561230011740 catalytic site [active] 561230011741 substrate binding site [chemical binding]; other site 561230011742 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 561230011743 active site 561230011744 metal-binding site 561230011745 ATP-dependent helicase HepA; Validated; Region: PRK04914 561230011746 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 561230011747 ATP binding site [chemical binding]; other site 561230011748 putative Mg++ binding site [ion binding]; other site 561230011749 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 561230011750 nucleotide binding region [chemical binding]; other site 561230011751 ATP-binding site [chemical binding]; other site 561230011752 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 561230011753 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 561230011754 active site 561230011755 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 561230011756 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 561230011757 putative metal binding site [ion binding]; other site 561230011758 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 561230011759 HSP70 interaction site [polypeptide binding]; other site 561230011760 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 561230011761 OstA-like protein; Region: OstA; pfam03968 561230011762 Organic solvent tolerance protein; Region: OstA_C; pfam04453 561230011763 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 561230011764 SurA N-terminal domain; Region: SurA_N; pfam09312 561230011765 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 561230011766 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 561230011767 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 561230011768 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 561230011769 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 561230011770 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 561230011771 S-adenosylmethionine binding site [chemical binding]; other site 561230011772 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 561230011773 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 561230011774 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 561230011775 active site 561230011776 metal binding site [ion binding]; metal-binding site 561230011777 Protein of unknown function, DUF606; Region: DUF606; pfam04657 561230011778 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230011779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230011780 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 561230011781 putative substrate binding pocket [chemical binding]; other site 561230011782 putative dimerization interface [polypeptide binding]; other site 561230011783 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 561230011784 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 561230011785 folate binding site [chemical binding]; other site 561230011786 NADP+ binding site [chemical binding]; other site 561230011787 hypothetical protein; Provisional; Region: PRK09917 561230011788 Uncharacterized conserved protein [Function unknown]; Region: COG2966 561230011789 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 561230011790 LysE type translocator; Region: LysE; cl00565 561230011791 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561230011792 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 561230011793 putative dimer interface [polypeptide binding]; other site 561230011794 Predicted transcriptional regulator [Transcription]; Region: COG2378 561230011795 HTH domain; Region: HTH_11; pfam08279 561230011796 WYL domain; Region: WYL; pfam13280 561230011797 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 561230011798 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561230011799 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 561230011800 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 561230011801 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561230011802 ATP-grasp domain; Region: ATP-grasp_4; cl17255 561230011803 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 561230011804 IMP binding site; other site 561230011805 dimer interface [polypeptide binding]; other site 561230011806 interdomain contacts; other site 561230011807 partial ornithine binding site; other site 561230011808 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 561230011809 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 561230011810 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 561230011811 catalytic site [active] 561230011812 subunit interface [polypeptide binding]; other site 561230011813 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 561230011814 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 561230011815 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 561230011816 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 561230011817 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 561230011818 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 561230011819 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561230011820 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 561230011821 lipoprotein signal peptidase; Provisional; Region: PRK14787 561230011822 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 561230011823 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 561230011824 active site 561230011825 HIGH motif; other site 561230011826 nucleotide binding site [chemical binding]; other site 561230011827 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 561230011828 active site 561230011829 KMSKS motif; other site 561230011830 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 561230011831 tRNA binding surface [nucleotide binding]; other site 561230011832 anticodon binding site; other site 561230011833 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 561230011834 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 561230011835 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 561230011836 active site 561230011837 Riboflavin kinase; Region: Flavokinase; smart00904 561230011838 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 561230011839 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 561230011840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230011841 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 561230011842 putative dimerization interface [polypeptide binding]; other site 561230011843 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 561230011844 chaperone protein DnaJ; Provisional; Region: PRK10767 561230011845 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 561230011846 HSP70 interaction site [polypeptide binding]; other site 561230011847 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 561230011848 substrate binding site [polypeptide binding]; other site 561230011849 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 561230011850 Zn binding sites [ion binding]; other site 561230011851 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 561230011852 dimer interface [polypeptide binding]; other site 561230011853 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 561230011854 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 561230011855 nucleotide binding site [chemical binding]; other site 561230011856 hypothetical protein; Provisional; Region: PRK10659 561230011857 metabolite-proton symporter; Region: 2A0106; TIGR00883 561230011858 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 561230011859 putative substrate translocation pore; other site 561230011860 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 561230011861 MPT binding site; other site 561230011862 trimer interface [polypeptide binding]; other site 561230011863 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230011864 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230011865 metal binding site [ion binding]; metal-binding site 561230011866 active site 561230011867 I-site; other site 561230011868 transaldolase-like protein; Provisional; Region: PTZ00411 561230011869 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 561230011870 active site 561230011871 dimer interface [polypeptide binding]; other site 561230011872 catalytic residue [active] 561230011873 hypothetical protein; Validated; Region: PRK02101 561230011874 threonine synthase; Validated; Region: PRK09225 561230011875 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 561230011876 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561230011877 catalytic residue [active] 561230011878 homoserine kinase; Provisional; Region: PRK01212 561230011879 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 561230011880 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 561230011881 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 561230011882 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 561230011883 putative catalytic residues [active] 561230011884 putative nucleotide binding site [chemical binding]; other site 561230011885 putative aspartate binding site [chemical binding]; other site 561230011886 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 561230011887 dimer interface [polypeptide binding]; other site 561230011888 putative threonine allosteric regulatory site; other site 561230011889 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 561230011890 putative threonine allosteric regulatory site; other site 561230011891 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 561230011892 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 561230011893 putative RNA methyltransferase; Provisional; Region: PRK10433 561230011894 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 561230011895 two-component response regulator; Provisional; Region: PRK11173 561230011896 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230011897 active site 561230011898 phosphorylation site [posttranslational modification] 561230011899 intermolecular recognition site; other site 561230011900 dimerization interface [polypeptide binding]; other site 561230011901 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 561230011902 DNA binding site [nucleotide binding] 561230011903 hypothetical protein; Provisional; Region: PRK10756 561230011904 CreA protein; Region: CreA; pfam05981 561230011905 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 561230011906 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230011907 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 561230011908 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 561230011909 catalytic core [active] 561230011910 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 561230011911 Trp operon repressor; Provisional; Region: PRK01381 561230011912 lytic murein transglycosylase; Provisional; Region: PRK11619 561230011913 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 561230011914 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561230011915 catalytic residue [active] 561230011916 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 561230011917 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561230011918 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561230011919 ABC transporter; Region: ABC_tran_2; pfam12848 561230011920 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561230011921 Tar ligand binding domain homologue; Region: TarH; pfam02203 561230011922 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 561230011923 dimer interface [polypeptide binding]; other site 561230011924 ligand binding site [chemical binding]; other site 561230011925 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 561230011926 dimerization interface [polypeptide binding]; other site 561230011927 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230011928 dimer interface [polypeptide binding]; other site 561230011929 putative CheW interface [polypeptide binding]; other site 561230011930 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230011931 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230011932 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 561230011933 putative effector binding pocket; other site 561230011934 dimerization interface [polypeptide binding]; other site 561230011935 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 561230011936 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 561230011937 putative NAD(P) binding site [chemical binding]; other site 561230011938 dimer interface [polypeptide binding]; other site 561230011939 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 561230011940 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 561230011941 ligand binding site [chemical binding]; other site 561230011942 NAD binding site [chemical binding]; other site 561230011943 tetramer interface [polypeptide binding]; other site 561230011944 catalytic site [active] 561230011945 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 561230011946 L-serine binding site [chemical binding]; other site 561230011947 ACT domain interface; other site 561230011948 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 561230011949 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561230011950 active site 561230011951 dimer interface [polypeptide binding]; other site 561230011952 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 561230011953 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230011954 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 561230011955 putative dimerization interface [polypeptide binding]; other site 561230011956 oxidative stress defense protein; Provisional; Region: PRK11087 561230011957 Uncharacterized conserved protein [Function unknown]; Region: COG2968 561230011958 arginine exporter protein; Provisional; Region: PRK09304 561230011959 Transcriptional regulator [Transcription]; Region: IclR; COG1414 561230011960 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 561230011961 Bacterial transcriptional regulator; Region: IclR; pfam01614 561230011962 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561230011963 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561230011964 Walker A/P-loop; other site 561230011965 ATP binding site [chemical binding]; other site 561230011966 Q-loop/lid; other site 561230011967 ABC transporter signature motif; other site 561230011968 Walker B; other site 561230011969 D-loop; other site 561230011970 H-loop/switch region; other site 561230011971 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561230011972 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 561230011973 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230011974 TM-ABC transporter signature motif; other site 561230011975 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 561230011976 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 561230011977 putative ligand binding site [chemical binding]; other site 561230011978 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 561230011979 Strictosidine synthase; Region: Str_synth; pfam03088 561230011980 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 561230011981 Domain of unknown function (DUF386); Region: DUF386; pfam04074 561230011982 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 561230011983 D-galactonate transporter; Region: 2A0114; TIGR00893 561230011984 putative substrate translocation pore; other site 561230011985 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 561230011986 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 561230011987 putative N- and C-terminal domain interface [polypeptide binding]; other site 561230011988 putative active site [active] 561230011989 MgATP binding site [chemical binding]; other site 561230011990 catalytic site [active] 561230011991 metal binding site [ion binding]; metal-binding site 561230011992 putative xylulose binding site [chemical binding]; other site 561230011993 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 561230011994 active site 561230011995 dimer interface [polypeptide binding]; other site 561230011996 magnesium binding site [ion binding]; other site 561230011997 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 561230011998 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 561230011999 AP (apurinic/apyrimidinic) site pocket; other site 561230012000 DNA interaction; other site 561230012001 Metal-binding active site; metal-binding site 561230012002 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 561230012003 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 561230012004 intersubunit interface [polypeptide binding]; other site 561230012005 active site 561230012006 Zn2+ binding site [ion binding]; other site 561230012007 mechanosensitive channel MscS; Provisional; Region: PRK10334 561230012008 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561230012009 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 561230012010 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 561230012011 active site 561230012012 intersubunit interface [polypeptide binding]; other site 561230012013 zinc binding site [ion binding]; other site 561230012014 Na+ binding site [ion binding]; other site 561230012015 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 561230012016 Phosphoglycerate kinase; Region: PGK; pfam00162 561230012017 substrate binding site [chemical binding]; other site 561230012018 hinge regions; other site 561230012019 ADP binding site [chemical binding]; other site 561230012020 catalytic site [active] 561230012021 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 561230012022 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 561230012023 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 561230012024 transketolase; Reviewed; Region: PRK12753 561230012025 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 561230012026 TPP-binding site [chemical binding]; other site 561230012027 dimer interface [polypeptide binding]; other site 561230012028 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 561230012029 PYR/PP interface [polypeptide binding]; other site 561230012030 dimer interface [polypeptide binding]; other site 561230012031 TPP binding site [chemical binding]; other site 561230012032 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 561230012033 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 561230012034 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 561230012035 DNA binding residues [nucleotide binding] 561230012036 dimerization interface [polypeptide binding]; other site 561230012037 arginine decarboxylase; Provisional; Region: PRK05354 561230012038 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 561230012039 dimer interface [polypeptide binding]; other site 561230012040 active site 561230012041 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561230012042 catalytic residues [active] 561230012043 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 561230012044 S-adenosylmethionine synthetase; Validated; Region: PRK05250 561230012045 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 561230012046 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 561230012047 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 561230012048 hypothetical protein; Provisional; Region: PRK04860 561230012049 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 561230012050 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 561230012051 DNA-specific endonuclease I; Provisional; Region: PRK15137 561230012052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 561230012053 RNA methyltransferase, RsmE family; Region: TIGR00046 561230012054 glutathione synthetase; Provisional; Region: PRK05246 561230012055 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 561230012056 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 561230012057 hypothetical protein; Validated; Region: PRK00228 561230012058 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 561230012059 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 561230012060 AMP binding site [chemical binding]; other site 561230012061 metal binding site [ion binding]; metal-binding site 561230012062 active site 561230012063 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 561230012064 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561230012065 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561230012066 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561230012067 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 561230012068 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 561230012069 GDP-binding site [chemical binding]; other site 561230012070 ACT binding site; other site 561230012071 IMP binding site; other site 561230012072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 561230012073 FtsH protease regulator HflC; Provisional; Region: PRK11029 561230012074 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 561230012075 FtsH protease regulator HflK; Provisional; Region: PRK10930 561230012076 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 561230012077 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 561230012078 GTPase HflX; Provisional; Region: PRK11058 561230012079 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 561230012080 HflX GTPase family; Region: HflX; cd01878 561230012081 G1 box; other site 561230012082 GTP/Mg2+ binding site [chemical binding]; other site 561230012083 Switch I region; other site 561230012084 G2 box; other site 561230012085 G3 box; other site 561230012086 Switch II region; other site 561230012087 G4 box; other site 561230012088 G5 box; other site 561230012089 bacterial Hfq-like; Region: Hfq; cd01716 561230012090 hexamer interface [polypeptide binding]; other site 561230012091 Sm1 motif; other site 561230012092 RNA binding site [nucleotide binding]; other site 561230012093 Sm2 motif; other site 561230012094 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 561230012095 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 561230012096 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 561230012097 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 561230012098 ATP binding site [chemical binding]; other site 561230012099 Mg2+ binding site [ion binding]; other site 561230012100 G-X-G motif; other site 561230012101 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 561230012102 ATP binding site [chemical binding]; other site 561230012103 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 561230012104 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 561230012105 AMIN domain; Region: AMIN; pfam11741 561230012106 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 561230012107 active site 561230012108 metal binding site [ion binding]; metal-binding site 561230012109 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561230012110 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561230012111 ADP-binding protein; Provisional; Region: PRK10646 561230012112 putative carbohydrate kinase; Provisional; Region: PRK10565 561230012113 Uncharacterized conserved protein [Function unknown]; Region: COG0062 561230012114 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 561230012115 putative substrate binding site [chemical binding]; other site 561230012116 putative ATP binding site [chemical binding]; other site 561230012117 epoxyqueuosine reductase; Region: TIGR00276 561230012118 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 561230012119 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 561230012120 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 561230012121 catalytic residue [active] 561230012122 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 561230012123 catalytic residues [active] 561230012124 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561230012125 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230012126 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 561230012127 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 561230012128 dimer interface [polypeptide binding]; other site 561230012129 decamer (pentamer of dimers) interface [polypeptide binding]; other site 561230012130 catalytic triad [active] 561230012131 peroxidatic and resolving cysteines [active] 561230012132 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 561230012133 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 561230012134 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561230012135 HlyD family secretion protein; Region: HlyD_3; pfam13437 561230012136 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 561230012137 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 561230012138 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561230012139 FtsX-like permease family; Region: FtsX; pfam02687 561230012140 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561230012141 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561230012142 Walker A/P-loop; other site 561230012143 ATP binding site [chemical binding]; other site 561230012144 Q-loop/lid; other site 561230012145 ABC transporter signature motif; other site 561230012146 Walker B; other site 561230012147 D-loop; other site 561230012148 H-loop/switch region; other site 561230012149 Flagellar protein FlhE; Region: FlhE; pfam06366 561230012150 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 561230012151 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 561230012152 NAD binding site [chemical binding]; other site 561230012153 ligand binding site [chemical binding]; other site 561230012154 catalytic site [active] 561230012155 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 561230012156 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 561230012157 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 561230012158 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 561230012159 putative NAD(P) binding site [chemical binding]; other site 561230012160 putative substrate binding site [chemical binding]; other site 561230012161 catalytic Zn binding site [ion binding]; other site 561230012162 structural Zn binding site [ion binding]; other site 561230012163 dimer interface [polypeptide binding]; other site 561230012164 LysE type translocator; Region: LysE; cl00565 561230012165 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 561230012166 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230012167 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 561230012168 dimerization interface [polypeptide binding]; other site 561230012169 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 561230012170 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230012171 putative substrate translocation pore; other site 561230012172 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561230012173 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 561230012174 Walker A/P-loop; other site 561230012175 ATP binding site [chemical binding]; other site 561230012176 Q-loop/lid; other site 561230012177 ABC transporter signature motif; other site 561230012178 Walker B; other site 561230012179 D-loop; other site 561230012180 H-loop/switch region; other site 561230012181 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561230012182 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 561230012183 dimer interface [polypeptide binding]; other site 561230012184 conserved gate region; other site 561230012185 putative PBP binding loops; other site 561230012186 ABC-ATPase subunit interface; other site 561230012187 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561230012188 NMT1-like family; Region: NMT1_2; pfam13379 561230012189 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 561230012190 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 561230012191 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 561230012192 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 561230012193 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561230012194 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 561230012195 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 561230012196 catalytic site [active] 561230012197 putative active site [active] 561230012198 putative substrate binding site [chemical binding]; other site 561230012199 dimer interface [polypeptide binding]; other site 561230012200 GTPase RsgA; Reviewed; Region: PRK12288 561230012201 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 561230012202 RNA binding site [nucleotide binding]; other site 561230012203 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 561230012204 GTPase/Zn-binding domain interface [polypeptide binding]; other site 561230012205 GTP/Mg2+ binding site [chemical binding]; other site 561230012206 G4 box; other site 561230012207 G5 box; other site 561230012208 G1 box; other site 561230012209 Switch I region; other site 561230012210 G2 box; other site 561230012211 G3 box; other site 561230012212 Switch II region; other site 561230012213 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 561230012214 putative mechanosensitive channel protein; Provisional; Region: PRK10929 561230012215 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 561230012216 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561230012217 poxB regulator PoxA; Provisional; Region: PRK09350 561230012218 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 561230012219 motif 1; other site 561230012220 dimer interface [polypeptide binding]; other site 561230012221 active site 561230012222 motif 2; other site 561230012223 motif 3; other site 561230012224 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 561230012225 L-aspartate oxidase; Provisional; Region: PRK06175 561230012226 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 561230012227 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 561230012228 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 561230012229 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 561230012230 D-subunit interface [polypeptide binding]; other site 561230012231 Iron-sulfur protein interface; other site 561230012232 proximal quinone binding site [chemical binding]; other site 561230012233 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 561230012234 Iron-sulfur protein interface; other site 561230012235 proximal quinone binding site [chemical binding]; other site 561230012236 C-subunit interface; other site 561230012237 distal quinone binding site; other site 561230012238 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 561230012239 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 561230012240 Protein of unknown function, DUF486; Region: DUF486; cl01236 561230012241 Predicted small secreted protein [Function unknown]; Region: COG5510 561230012242 elongation factor P; Validated; Region: PRK00529 561230012243 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 561230012244 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 561230012245 RNA binding site [nucleotide binding]; other site 561230012246 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 561230012247 RNA binding site [nucleotide binding]; other site 561230012248 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 561230012249 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 561230012250 FeS/SAM binding site; other site 561230012251 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 561230012252 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 561230012253 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 561230012254 active site 561230012255 dimer interface [polypeptide binding]; other site 561230012256 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 561230012257 dimer interface [polypeptide binding]; other site 561230012258 active site 561230012259 aspartate kinase III; Validated; Region: PRK09084 561230012260 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 561230012261 nucleotide binding site [chemical binding]; other site 561230012262 substrate binding site [chemical binding]; other site 561230012263 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 561230012264 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 561230012265 dimer interface [polypeptide binding]; other site 561230012266 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 561230012267 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 561230012268 PhoU domain; Region: PhoU; pfam01895 561230012269 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 561230012270 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 561230012271 transmembrane helices; other site 561230012272 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 561230012273 putative active site [active] 561230012274 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 561230012275 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 561230012276 N-terminal plug; other site 561230012277 ligand-binding site [chemical binding]; other site 561230012278 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230012279 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 561230012280 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 561230012281 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 561230012282 substrate binding pocket [chemical binding]; other site 561230012283 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 561230012284 B12 binding site [chemical binding]; other site 561230012285 cobalt ligand [ion binding]; other site 561230012286 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 561230012287 transcriptional repressor IclR; Provisional; Region: PRK11569 561230012288 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 561230012289 Bacterial transcriptional regulator; Region: IclR; pfam01614 561230012290 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 561230012291 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 561230012292 isocitrate lyase; Provisional; Region: PRK15063 561230012293 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 561230012294 tetramer interface [polypeptide binding]; other site 561230012295 active site 561230012296 Mg2+/Mn2+ binding site [ion binding]; other site 561230012297 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 561230012298 malate synthase A; Region: malate_syn_A; TIGR01344 561230012299 active site 561230012300 homoserine O-succinyltransferase; Provisional; Region: PRK05368 561230012301 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 561230012302 proposed active site lysine [active] 561230012303 conserved cys residue [active] 561230012304 hypothetical protein; Provisional; Region: PRK10039 561230012305 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 561230012306 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 561230012307 trimer interface [polypeptide binding]; other site 561230012308 putative metal binding site [ion binding]; other site 561230012309 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 561230012310 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 561230012311 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 561230012312 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 561230012313 shikimate binding site; other site 561230012314 NAD(P) binding site [chemical binding]; other site 561230012315 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 561230012316 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561230012317 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 561230012318 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561230012319 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561230012320 hypothetical protein; Validated; Region: PRK03430 561230012321 hypothetical protein; Provisional; Region: PRK10736 561230012322 DNA protecting protein DprA; Region: dprA; TIGR00732 561230012323 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 561230012324 active site 561230012325 catalytic residues [active] 561230012326 metal binding site [ion binding]; metal-binding site 561230012327 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 561230012328 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 561230012329 putative active site [active] 561230012330 substrate binding site [chemical binding]; other site 561230012331 putative cosubstrate binding site; other site 561230012332 catalytic site [active] 561230012333 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 561230012334 substrate binding site [chemical binding]; other site 561230012335 16S rRNA methyltransferase B; Provisional; Region: PRK10901 561230012336 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 561230012337 putative RNA binding site [nucleotide binding]; other site 561230012338 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 561230012339 S-adenosylmethionine binding site [chemical binding]; other site 561230012340 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 561230012341 TrkA-N domain; Region: TrkA_N; pfam02254 561230012342 TrkA-C domain; Region: TrkA_C; pfam02080 561230012343 TrkA-N domain; Region: TrkA_N; pfam02254 561230012344 TrkA-C domain; Region: TrkA_C; pfam02080 561230012345 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 561230012346 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 561230012347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 561230012348 hypothetical protein; Provisional; Region: PRK10203 561230012349 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 561230012350 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 561230012351 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 561230012352 alphaNTD homodimer interface [polypeptide binding]; other site 561230012353 alphaNTD - beta interaction site [polypeptide binding]; other site 561230012354 alphaNTD - beta' interaction site [polypeptide binding]; other site 561230012355 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 561230012356 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 561230012357 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 561230012358 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 561230012359 RNA binding surface [nucleotide binding]; other site 561230012360 30S ribosomal protein S11; Validated; Region: PRK05309 561230012361 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 561230012362 30S ribosomal protein S13; Region: bact_S13; TIGR03631 561230012363 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 561230012364 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 561230012365 SecY translocase; Region: SecY; pfam00344 561230012366 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 561230012367 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 561230012368 23S rRNA binding site [nucleotide binding]; other site 561230012369 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 561230012370 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 561230012371 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 561230012372 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 561230012373 5S rRNA interface [nucleotide binding]; other site 561230012374 23S rRNA interface [nucleotide binding]; other site 561230012375 L5 interface [polypeptide binding]; other site 561230012376 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 561230012377 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 561230012378 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 561230012379 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 561230012380 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 561230012381 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 561230012382 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 561230012383 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 561230012384 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 561230012385 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 561230012386 RNA binding site [nucleotide binding]; other site 561230012387 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 561230012388 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 561230012389 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 561230012390 23S rRNA interface [nucleotide binding]; other site 561230012391 putative translocon interaction site; other site 561230012392 signal recognition particle (SRP54) interaction site; other site 561230012393 L23 interface [polypeptide binding]; other site 561230012394 trigger factor interaction site; other site 561230012395 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 561230012396 23S rRNA interface [nucleotide binding]; other site 561230012397 5S rRNA interface [nucleotide binding]; other site 561230012398 putative antibiotic binding site [chemical binding]; other site 561230012399 L25 interface [polypeptide binding]; other site 561230012400 L27 interface [polypeptide binding]; other site 561230012401 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 561230012402 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 561230012403 G-X-X-G motif; other site 561230012404 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 561230012405 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 561230012406 protein-rRNA interface [nucleotide binding]; other site 561230012407 putative translocon binding site; other site 561230012408 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 561230012409 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 561230012410 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 561230012411 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 561230012412 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 561230012413 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 561230012414 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 561230012415 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 561230012416 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 561230012417 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 561230012418 heme binding site [chemical binding]; other site 561230012419 ferroxidase pore; other site 561230012420 ferroxidase diiron center [ion binding]; other site 561230012421 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 561230012422 elongation factor Tu; Reviewed; Region: PRK00049 561230012423 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 561230012424 G1 box; other site 561230012425 GEF interaction site [polypeptide binding]; other site 561230012426 GTP/Mg2+ binding site [chemical binding]; other site 561230012427 Switch I region; other site 561230012428 G2 box; other site 561230012429 G3 box; other site 561230012430 Switch II region; other site 561230012431 G4 box; other site 561230012432 G5 box; other site 561230012433 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 561230012434 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 561230012435 Antibiotic Binding Site [chemical binding]; other site 561230012436 elongation factor G; Reviewed; Region: PRK00007 561230012437 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 561230012438 G1 box; other site 561230012439 putative GEF interaction site [polypeptide binding]; other site 561230012440 GTP/Mg2+ binding site [chemical binding]; other site 561230012441 Switch I region; other site 561230012442 G2 box; other site 561230012443 G3 box; other site 561230012444 Switch II region; other site 561230012445 G4 box; other site 561230012446 G5 box; other site 561230012447 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 561230012448 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 561230012449 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 561230012450 30S ribosomal protein S7; Validated; Region: PRK05302 561230012451 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 561230012452 S17 interaction site [polypeptide binding]; other site 561230012453 S8 interaction site; other site 561230012454 16S rRNA interaction site [nucleotide binding]; other site 561230012455 streptomycin interaction site [chemical binding]; other site 561230012456 23S rRNA interaction site [nucleotide binding]; other site 561230012457 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 561230012458 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 561230012459 sulfur relay protein TusC; Validated; Region: PRK00211 561230012460 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 561230012461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 561230012462 YheO-like PAS domain; Region: PAS_6; pfam08348 561230012463 HTH domain; Region: HTH_22; pfam13309 561230012464 putative metal dependent hydrolase; Provisional; Region: PRK11598 561230012465 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 561230012466 Sulfatase; Region: Sulfatase; pfam00884 561230012467 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 561230012468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230012469 active site 561230012470 phosphorylation site [posttranslational modification] 561230012471 intermolecular recognition site; other site 561230012472 dimerization interface [polypeptide binding]; other site 561230012473 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 561230012474 DNA binding site [nucleotide binding] 561230012475 sensor protein BasS/PmrB; Provisional; Region: PRK10755 561230012476 HAMP domain; Region: HAMP; pfam00672 561230012477 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 561230012478 dimer interface [polypeptide binding]; other site 561230012479 phosphorylation site [posttranslational modification] 561230012480 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 561230012481 ATP binding site [chemical binding]; other site 561230012482 Mg2+ binding site [ion binding]; other site 561230012483 G-X-G motif; other site 561230012484 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 561230012485 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 561230012486 dimer interface [polypeptide binding]; other site 561230012487 active site 561230012488 glycine-pyridoxal phosphate binding site [chemical binding]; other site 561230012489 folate binding site [chemical binding]; other site 561230012490 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 561230012491 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561230012492 catalytic residue [active] 561230012493 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 561230012494 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230012495 DNA-binding site [nucleotide binding]; DNA binding site 561230012496 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 561230012497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230012498 homodimer interface [polypeptide binding]; other site 561230012499 catalytic residue [active] 561230012500 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 561230012501 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 561230012502 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561230012503 phi X174 lysis protein; Provisional; Region: PRK02793 561230012504 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 561230012505 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561230012506 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 561230012507 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 561230012508 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 561230012509 TrkA-N domain; Region: TrkA_N; pfam02254 561230012510 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 561230012511 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 561230012512 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230012513 Walker A/P-loop; other site 561230012514 ATP binding site [chemical binding]; other site 561230012515 Q-loop/lid; other site 561230012516 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561230012517 ABC transporter signature motif; other site 561230012518 Walker B; other site 561230012519 D-loop; other site 561230012520 ABC transporter; Region: ABC_tran_2; pfam12848 561230012521 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561230012522 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561230012523 putative hydrolase; Provisional; Region: PRK10985 561230012524 hypothetical protein; Provisional; Region: PRK04966 561230012525 phosphoribulokinase; Provisional; Region: PRK15453 561230012526 active site 561230012527 hypothetical protein; Provisional; Region: PRK10738 561230012528 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 561230012529 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 561230012530 ligand binding site [chemical binding]; other site 561230012531 flexible hinge region; other site 561230012532 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 561230012533 putative switch regulator; other site 561230012534 non-specific DNA interactions [nucleotide binding]; other site 561230012535 DNA binding site [nucleotide binding] 561230012536 sequence specific DNA binding site [nucleotide binding]; other site 561230012537 putative cAMP binding site [chemical binding]; other site 561230012538 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 561230012539 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 561230012540 inhibitor-cofactor binding pocket; inhibition site 561230012541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230012542 catalytic residue [active] 561230012543 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 561230012544 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 561230012545 glutamine binding [chemical binding]; other site 561230012546 catalytic triad [active] 561230012547 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561230012548 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230012549 Pectate lyase; Region: Pec_lyase_C; pfam00544 561230012550 Pectate lyase; Region: Pec_lyase_C; pfam00544 561230012551 Pectate lyase; Region: Pec_lyase_C; pfam00544 561230012552 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 561230012553 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 561230012554 substrate binding site [chemical binding]; other site 561230012555 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561230012556 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230012557 Walker A/P-loop; other site 561230012558 ATP binding site [chemical binding]; other site 561230012559 Q-loop/lid; other site 561230012560 ABC transporter signature motif; other site 561230012561 Walker B; other site 561230012562 D-loop; other site 561230012563 H-loop/switch region; other site 561230012564 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561230012565 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230012566 Walker A/P-loop; other site 561230012567 ATP binding site [chemical binding]; other site 561230012568 Q-loop/lid; other site 561230012569 ABC transporter signature motif; other site 561230012570 Walker B; other site 561230012571 D-loop; other site 561230012572 H-loop/switch region; other site 561230012573 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230012574 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 561230012575 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561230012576 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 561230012577 ABC-ATPase subunit interface; other site 561230012578 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561230012579 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 561230012580 dimer interface [polypeptide binding]; other site 561230012581 conserved gate region; other site 561230012582 putative PBP binding loops; other site 561230012583 ABC-ATPase subunit interface; other site 561230012584 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561230012585 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 561230012586 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 561230012587 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 561230012588 putative active site pocket [active] 561230012589 metal binding site [ion binding]; metal-binding site 561230012590 nitrite reductase subunit NirD; Provisional; Region: PRK14989 561230012591 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230012592 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 561230012593 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 561230012594 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561230012595 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 561230012596 siroheme synthase; Provisional; Region: cysG; PRK10637 561230012597 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 561230012598 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 561230012599 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 561230012600 active site 561230012601 SAM binding site [chemical binding]; other site 561230012602 homodimer interface [polypeptide binding]; other site 561230012603 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230012604 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 561230012605 dimer interface [polypeptide binding]; other site 561230012606 conserved gate region; other site 561230012607 putative PBP binding loops; other site 561230012608 ABC-ATPase subunit interface; other site 561230012609 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230012610 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 561230012611 dimer interface [polypeptide binding]; other site 561230012612 conserved gate region; other site 561230012613 putative PBP binding loops; other site 561230012614 ABC-ATPase subunit interface; other site 561230012615 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 561230012616 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561230012617 Walker A/P-loop; other site 561230012618 ATP binding site [chemical binding]; other site 561230012619 Q-loop/lid; other site 561230012620 ABC transporter signature motif; other site 561230012621 Walker B; other site 561230012622 D-loop; other site 561230012623 H-loop/switch region; other site 561230012624 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 561230012625 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 561230012626 substrate binding pocket [chemical binding]; other site 561230012627 membrane-bound complex binding site; other site 561230012628 hinge residues; other site 561230012629 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 561230012630 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 561230012631 putative metal binding site [ion binding]; other site 561230012632 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 561230012633 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 561230012634 active site 561230012635 HIGH motif; other site 561230012636 dimer interface [polypeptide binding]; other site 561230012637 KMSKS motif; other site 561230012638 phosphoglycolate phosphatase; Provisional; Region: PRK13222 561230012639 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561230012640 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 561230012641 motif II; other site 561230012642 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 561230012643 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 561230012644 substrate binding site [chemical binding]; other site 561230012645 hexamer interface [polypeptide binding]; other site 561230012646 metal binding site [ion binding]; metal-binding site 561230012647 DNA adenine methylase; Provisional; Region: PRK10904 561230012648 hypothetical protein; Reviewed; Region: PRK11901 561230012649 cell division protein DamX; Validated; Region: PRK10905 561230012650 cell division protein DamX; Validated; Region: PRK10905 561230012651 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 561230012652 active site 561230012653 dimer interface [polypeptide binding]; other site 561230012654 metal binding site [ion binding]; metal-binding site 561230012655 shikimate kinase; Reviewed; Region: aroK; PRK00131 561230012656 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 561230012657 ADP binding site [chemical binding]; other site 561230012658 magnesium binding site [ion binding]; other site 561230012659 putative shikimate binding site; other site 561230012660 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 561230012661 Secretin and TonB N terminus short domain; Region: STN; smart00965 561230012662 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561230012663 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561230012664 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 561230012665 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 561230012666 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 561230012667 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 561230012668 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 561230012669 Transglycosylase; Region: Transgly; pfam00912 561230012670 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 561230012671 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 561230012672 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 561230012673 ADP-ribose binding site [chemical binding]; other site 561230012674 dimer interface [polypeptide binding]; other site 561230012675 active site 561230012676 nudix motif; other site 561230012677 metal binding site [ion binding]; metal-binding site 561230012678 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 561230012679 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 561230012680 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 561230012681 active site 561230012682 motif I; other site 561230012683 motif II; other site 561230012684 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 561230012685 RNA binding surface [nucleotide binding]; other site 561230012686 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 561230012687 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 561230012688 dimerization interface [polypeptide binding]; other site 561230012689 domain crossover interface; other site 561230012690 redox-dependent activation switch; other site 561230012691 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 561230012692 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 561230012693 active site 561230012694 substrate-binding site [chemical binding]; other site 561230012695 metal-binding site [ion binding] 561230012696 ATP binding site [chemical binding]; other site 561230012697 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 561230012698 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 561230012699 dimerization interface [polypeptide binding]; other site 561230012700 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 561230012701 dimer interface [polypeptide binding]; other site 561230012702 phosphorylation site [posttranslational modification] 561230012703 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 561230012704 ATP binding site [chemical binding]; other site 561230012705 Mg2+ binding site [ion binding]; other site 561230012706 G-X-G motif; other site 561230012707 osmolarity response regulator; Provisional; Region: ompR; PRK09468 561230012708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230012709 active site 561230012710 phosphorylation site [posttranslational modification] 561230012711 intermolecular recognition site; other site 561230012712 dimerization interface [polypeptide binding]; other site 561230012713 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 561230012714 DNA binding site [nucleotide binding] 561230012715 ParB-like nuclease domain; Region: ParB; smart00470 561230012716 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 561230012717 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 561230012718 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 561230012719 intersubunit interface [polypeptide binding]; other site 561230012720 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 561230012721 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230012722 putative substrate translocation pore; other site 561230012723 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 561230012724 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 561230012725 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 561230012726 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 561230012727 dimer interface [polypeptide binding]; other site 561230012728 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230012729 catalytic residue [active] 561230012730 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Y4yA; Region: PLPDE_III_Y4yA_like; cd06842 561230012731 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 561230012732 dimer interface [polypeptide binding]; other site 561230012733 active site 561230012734 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561230012735 catalytic residues [active] 561230012736 substrate binding site [chemical binding]; other site 561230012737 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561230012738 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 561230012739 N-terminal plug; other site 561230012740 ligand-binding site [chemical binding]; other site 561230012741 IucA / IucC family; Region: IucA_IucC; pfam04183 561230012742 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 561230012743 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 561230012744 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 561230012745 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 561230012746 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 561230012747 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 561230012748 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 561230012749 putative acyl-acceptor binding pocket; other site 561230012750 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 561230012751 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230012752 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561230012753 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230012754 dimer interface [polypeptide binding]; other site 561230012755 putative CheW interface [polypeptide binding]; other site 561230012756 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 561230012757 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 561230012758 dimer interface [polypeptide binding]; other site 561230012759 active site 561230012760 citrylCoA binding site [chemical binding]; other site 561230012761 NADH binding [chemical binding]; other site 561230012762 cationic pore residues; other site 561230012763 oxalacetate/citrate binding site [chemical binding]; other site 561230012764 coenzyme A binding site [chemical binding]; other site 561230012765 catalytic triad [active] 561230012766 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 561230012767 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 561230012768 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 561230012769 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 561230012770 RNA binding site [nucleotide binding]; other site 561230012771 Transcriptional regulator [Transcription]; Region: IclR; COG1414 561230012772 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 561230012773 Bacterial transcriptional regulator; Region: IclR; pfam01614 561230012774 2-keto-3-deoxygluconate permease; Region: KdgT; pfam03812 561230012775 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 561230012776 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 561230012777 active site 561230012778 homotetramer interface [polypeptide binding]; other site 561230012779 homodimer interface [polypeptide binding]; other site 561230012780 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561230012781 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561230012782 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561230012783 Walker A/P-loop; other site 561230012784 ATP binding site [chemical binding]; other site 561230012785 Q-loop/lid; other site 561230012786 ABC transporter signature motif; other site 561230012787 Walker B; other site 561230012788 D-loop; other site 561230012789 H-loop/switch region; other site 561230012790 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 561230012791 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 561230012792 dimer interface [polypeptide binding]; other site 561230012793 Alkaline phosphatase homologues; Region: alkPPc; smart00098 561230012794 active site 561230012795 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 561230012796 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 561230012797 conserved cys residue [active] 561230012798 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230012799 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561230012800 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 561230012801 Protein export membrane protein; Region: SecD_SecF; cl14618 561230012802 carboxylesterase BioH; Provisional; Region: PRK10349 561230012803 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 561230012804 DNA utilization protein GntX; Provisional; Region: PRK11595 561230012805 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561230012806 active site 561230012807 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 561230012808 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 561230012809 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 561230012810 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 561230012811 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 561230012812 maltodextrin phosphorylase; Provisional; Region: PRK14985 561230012813 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 561230012814 active site pocket [active] 561230012815 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 561230012816 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 561230012817 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561230012818 intramembrane serine protease GlpG; Provisional; Region: PRK10907 561230012819 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 561230012820 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 561230012821 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 561230012822 active site residue [active] 561230012823 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 561230012824 glycogen phosphorylase; Provisional; Region: PRK14986 561230012825 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 561230012826 homodimer interface [polypeptide binding]; other site 561230012827 active site pocket [active] 561230012828 glycogen synthase; Provisional; Region: glgA; PRK00654 561230012829 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 561230012830 ADP-binding pocket [chemical binding]; other site 561230012831 homodimer interface [polypeptide binding]; other site 561230012832 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 561230012833 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 561230012834 ligand binding site; other site 561230012835 oligomer interface; other site 561230012836 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 561230012837 dimer interface [polypeptide binding]; other site 561230012838 N-terminal domain interface [polypeptide binding]; other site 561230012839 sulfate 1 binding site; other site 561230012840 glycogen debranching enzyme; Provisional; Region: PRK03705 561230012841 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 561230012842 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 561230012843 active site 561230012844 catalytic site [active] 561230012845 glycogen branching enzyme; Provisional; Region: PRK05402 561230012846 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 561230012847 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 561230012848 active site 561230012849 catalytic site [active] 561230012850 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 561230012851 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 561230012852 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 561230012853 GAF domain; Region: GAF; pfam01590 561230012854 Histidine kinase; Region: His_kinase; pfam06580 561230012855 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 561230012856 ATP binding site [chemical binding]; other site 561230012857 Mg2+ binding site [ion binding]; other site 561230012858 G-X-G motif; other site 561230012859 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230012860 Coenzyme A binding pocket [chemical binding]; other site 561230012861 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 561230012862 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 561230012863 putative antibiotic transporter; Provisional; Region: PRK10739 561230012864 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 561230012865 fructuronate transporter; Provisional; Region: PRK10034; cl15264 561230012866 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 561230012867 ATP-binding site [chemical binding]; other site 561230012868 Gluconate-6-phosphate binding site [chemical binding]; other site 561230012869 Shikimate kinase; Region: SKI; pfam01202 561230012870 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 561230012871 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230012872 DNA binding site [nucleotide binding] 561230012873 domain linker motif; other site 561230012874 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 561230012875 putative ligand binding site [chemical binding]; other site 561230012876 putative dimerization interface [polypeptide binding]; other site 561230012877 Pirin-related protein [General function prediction only]; Region: COG1741 561230012878 Pirin; Region: Pirin; pfam02678 561230012879 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 561230012880 Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an...; Region: Fascin; cl00187 561230012881 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 561230012882 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 561230012883 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 561230012884 active site 561230012885 motif I; other site 561230012886 motif II; other site 561230012887 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561230012888 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 561230012889 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 561230012890 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 561230012891 active site 561230012892 phosphorylation site [posttranslational modification] 561230012893 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 561230012894 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 561230012895 active pocket/dimerization site; other site 561230012896 active site 561230012897 phosphorylation site [posttranslational modification] 561230012898 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 561230012899 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 561230012900 Walker A motif; other site 561230012901 ATP binding site [chemical binding]; other site 561230012902 Walker B motif; other site 561230012903 arginine finger; other site 561230012904 Transcriptional antiterminator [Transcription]; Region: COG3933 561230012905 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 561230012906 active pocket/dimerization site; other site 561230012907 active site 561230012908 phosphorylation site [posttranslational modification] 561230012909 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 561230012910 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 561230012911 Cysteine-rich domain; Region: CCG; pfam02754 561230012912 Cysteine-rich domain; Region: CCG; pfam02754 561230012913 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 561230012914 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 561230012915 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 561230012916 hydroxyglutarate oxidase; Provisional; Region: PRK11728 561230012917 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 561230012918 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 561230012919 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 561230012920 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 561230012921 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 561230012922 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 561230012923 active site 561230012924 catalytic site [active] 561230012925 metal binding site [ion binding]; metal-binding site 561230012926 putative hydrolase; Provisional; Region: PRK10976 561230012927 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 561230012928 active site 561230012929 motif I; other site 561230012930 motif II; other site 561230012931 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561230012932 lysophospholipase L2; Provisional; Region: PRK10749 561230012933 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 561230012934 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 561230012935 threonine efflux system; Provisional; Region: PRK10229 561230012936 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 561230012937 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 561230012938 ATP binding site [chemical binding]; other site 561230012939 putative Mg++ binding site [ion binding]; other site 561230012940 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 561230012941 nucleotide binding region [chemical binding]; other site 561230012942 ATP-binding site [chemical binding]; other site 561230012943 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 561230012944 Helicase and RNase D C-terminal; Region: HRDC; smart00341 561230012945 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 561230012946 dimerization interface [polypeptide binding]; other site 561230012947 substrate binding site [chemical binding]; other site 561230012948 active site 561230012949 calcium binding site [ion binding]; other site 561230012950 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 561230012951 CoenzymeA binding site [chemical binding]; other site 561230012952 subunit interaction site [polypeptide binding]; other site 561230012953 PHB binding site; other site 561230012954 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 561230012955 EamA-like transporter family; Region: EamA; cl17759 561230012956 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 561230012957 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 561230012958 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 561230012959 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 561230012960 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 561230012961 Cl binding site [ion binding]; other site 561230012962 oligomer interface [polypeptide binding]; other site 561230012963 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 561230012964 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 561230012965 Part of AAA domain; Region: AAA_19; pfam13245 561230012966 Family description; Region: UvrD_C_2; pfam13538 561230012967 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 561230012968 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 561230012969 motif II; other site 561230012970 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 561230012971 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 561230012972 active site 561230012973 DNA binding site [nucleotide binding] 561230012974 Int/Topo IB signature motif; other site 561230012975 hypothetical protein; Provisional; Region: PRK10963 561230012976 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 561230012977 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 561230012978 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 561230012979 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 561230012980 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 561230012981 putative iron binding site [ion binding]; other site 561230012982 adenylate cyclase; Provisional; Region: cyaA; PRK09450 561230012983 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 561230012984 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 561230012985 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 561230012986 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 561230012987 domain interfaces; other site 561230012988 active site 561230012989 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 561230012990 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 561230012991 active site 561230012992 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 561230012993 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 561230012994 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 561230012995 HemY protein N-terminus; Region: HemY_N; pfam07219 561230012996 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 561230012997 TPR motif; other site 561230012998 binding surface 561230012999 Transcriptional regulators [Transcription]; Region: FadR; COG2186 561230013000 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230013001 DNA-binding site [nucleotide binding]; DNA binding site 561230013002 FCD domain; Region: FCD; pfam07729 561230013003 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 561230013004 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 561230013005 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561230013006 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 561230013007 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 561230013008 substrate binding pocket [chemical binding]; other site 561230013009 membrane-bound complex binding site; other site 561230013010 hinge residues; other site 561230013011 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 561230013012 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 561230013013 conserved gate region; other site 561230013014 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 561230013015 putative PBP binding loops; other site 561230013016 dimer interface [polypeptide binding]; other site 561230013017 ABC-ATPase subunit interface; other site 561230013018 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230013019 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 561230013020 dimer interface [polypeptide binding]; other site 561230013021 conserved gate region; other site 561230013022 putative PBP binding loops; other site 561230013023 ABC-ATPase subunit interface; other site 561230013024 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561230013025 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561230013026 Walker A/P-loop; other site 561230013027 ATP binding site [chemical binding]; other site 561230013028 Q-loop/lid; other site 561230013029 ABC transporter signature motif; other site 561230013030 Walker B; other site 561230013031 D-loop; other site 561230013032 H-loop/switch region; other site 561230013033 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 561230013034 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 561230013035 metal binding site [ion binding]; metal-binding site 561230013036 dimer interface [polypeptide binding]; other site 561230013037 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561230013038 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561230013039 Walker A/P-loop; other site 561230013040 ATP binding site [chemical binding]; other site 561230013041 Q-loop/lid; other site 561230013042 ABC transporter signature motif; other site 561230013043 Walker B; other site 561230013044 D-loop; other site 561230013045 H-loop/switch region; other site 561230013046 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 561230013047 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561230013048 dimer interface [polypeptide binding]; other site 561230013049 conserved gate region; other site 561230013050 putative PBP binding loops; other site 561230013051 ABC-ATPase subunit interface; other site 561230013052 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561230013053 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 561230013054 substrate binding pocket [chemical binding]; other site 561230013055 membrane-bound complex binding site; other site 561230013056 hinge residues; other site 561230013057 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561230013058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230013059 Coenzyme A binding pocket [chemical binding]; other site 561230013060 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 561230013061 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 561230013062 tetramer interface [polypeptide binding]; other site 561230013063 active site 561230013064 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 561230013065 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 561230013066 catalytic core [active] 561230013067 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 561230013068 putative transport protein YifK; Provisional; Region: PRK10746 561230013069 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 561230013070 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 561230013071 putative common antigen polymerase; Provisional; Region: PRK02975 561230013072 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 561230013073 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 561230013074 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 561230013075 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 561230013076 inhibitor-cofactor binding pocket; inhibition site 561230013077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230013078 catalytic residue [active] 561230013079 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 561230013080 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230013081 Coenzyme A binding pocket [chemical binding]; other site 561230013082 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 561230013083 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 561230013084 NAD binding site [chemical binding]; other site 561230013085 substrate binding site [chemical binding]; other site 561230013086 homodimer interface [polypeptide binding]; other site 561230013087 active site 561230013088 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 561230013089 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 561230013090 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 561230013091 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 561230013092 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 561230013093 active site 561230013094 homodimer interface [polypeptide binding]; other site 561230013095 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 561230013096 Chain length determinant protein; Region: Wzz; pfam02706 561230013097 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 561230013098 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 561230013099 Mg++ binding site [ion binding]; other site 561230013100 putative catalytic motif [active] 561230013101 substrate binding site [chemical binding]; other site 561230013102 transcription termination factor Rho; Provisional; Region: rho; PRK09376 561230013103 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 561230013104 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 561230013105 RNA binding site [nucleotide binding]; other site 561230013106 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 561230013107 multimer interface [polypeptide binding]; other site 561230013108 Walker A motif; other site 561230013109 ATP binding site [chemical binding]; other site 561230013110 Walker B motif; other site 561230013111 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 561230013112 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 561230013113 catalytic residues [active] 561230013114 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 561230013115 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 561230013116 ATP binding site [chemical binding]; other site 561230013117 Mg++ binding site [ion binding]; other site 561230013118 motif III; other site 561230013119 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 561230013120 nucleotide binding region [chemical binding]; other site 561230013121 ATP-binding site [chemical binding]; other site 561230013122 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 561230013123 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 561230013124 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 561230013125 Part of AAA domain; Region: AAA_19; pfam13245 561230013126 Family description; Region: UvrD_C_2; pfam13538 561230013127 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 561230013128 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 561230013129 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 561230013130 Predicted transcriptional regulator [Transcription]; Region: COG3905 561230013131 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 561230013132 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 561230013133 Glutamate binding site [chemical binding]; other site 561230013134 NAD binding site [chemical binding]; other site 561230013135 catalytic residues [active] 561230013136 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 561230013137 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 561230013138 Na binding site [ion binding]; other site 561230013139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230013140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230013141 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 561230013142 dimerization interface [polypeptide binding]; other site 561230013143 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 561230013144 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 561230013145 ketol-acid reductoisomerase; Validated; Region: PRK05225 561230013146 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 561230013147 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 561230013148 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 561230013149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230013150 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 561230013151 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 561230013152 putative dimerization interface [polypeptide binding]; other site 561230013153 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 561230013154 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 561230013155 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561230013156 threonine dehydratase; Reviewed; Region: PRK09224 561230013157 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 561230013158 tetramer interface [polypeptide binding]; other site 561230013159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230013160 catalytic residue [active] 561230013161 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 561230013162 putative Ile/Val binding site [chemical binding]; other site 561230013163 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 561230013164 putative Ile/Val binding site [chemical binding]; other site 561230013165 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 561230013166 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 561230013167 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 561230013168 homodimer interface [polypeptide binding]; other site 561230013169 substrate-cofactor binding pocket; other site 561230013170 catalytic residue [active] 561230013171 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 561230013172 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 561230013173 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561230013174 PYR/PP interface [polypeptide binding]; other site 561230013175 dimer interface [polypeptide binding]; other site 561230013176 TPP binding site [chemical binding]; other site 561230013177 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561230013178 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 561230013179 TPP-binding site [chemical binding]; other site 561230013180 dimer interface [polypeptide binding]; other site 561230013181 putative ATP-dependent protease; Provisional; Region: PRK09862 561230013182 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 561230013183 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 561230013184 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 561230013185 hypothetical protein; Provisional; Region: PRK11027 561230013186 transcriptional regulator HdfR; Provisional; Region: PRK03601 561230013187 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230013188 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 561230013189 dimerization interface [polypeptide binding]; other site 561230013190 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230013191 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 561230013192 TM-ABC transporter signature motif; other site 561230013193 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230013194 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 561230013195 TM-ABC transporter signature motif; other site 561230013196 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561230013197 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561230013198 Walker A/P-loop; other site 561230013199 ATP binding site [chemical binding]; other site 561230013200 Q-loop/lid; other site 561230013201 ABC transporter signature motif; other site 561230013202 Walker B; other site 561230013203 D-loop; other site 561230013204 H-loop/switch region; other site 561230013205 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561230013206 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 561230013207 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 561230013208 putative ligand binding site [chemical binding]; other site 561230013209 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 561230013210 potassium transporter; Provisional; Region: PRK10750 561230013211 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 561230013212 hypothetical protein; Provisional; Region: PRK11568 561230013213 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 561230013214 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 561230013215 proline dipeptidase; Provisional; Region: PRK13607 561230013216 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 561230013217 active site 561230013218 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 561230013219 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 561230013220 substrate binding site [chemical binding]; other site 561230013221 oxyanion hole (OAH) forming residues; other site 561230013222 trimer interface [polypeptide binding]; other site 561230013223 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 561230013224 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 561230013225 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 561230013226 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 561230013227 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 561230013228 dimer interface [polypeptide binding]; other site 561230013229 active site 561230013230 FMN reductase; Validated; Region: fre; PRK08051 561230013231 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 561230013232 FAD binding pocket [chemical binding]; other site 561230013233 FAD binding motif [chemical binding]; other site 561230013234 phosphate binding motif [ion binding]; other site 561230013235 beta-alpha-beta structure motif; other site 561230013236 NAD binding pocket [chemical binding]; other site 561230013237 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 561230013238 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 561230013239 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 561230013240 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 561230013241 dimer interface [polypeptide binding]; other site 561230013242 allosteric magnesium binding site [ion binding]; other site 561230013243 active site 561230013244 aspartate-rich active site metal binding site; other site 561230013245 Schiff base residues; other site 561230013246 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 561230013247 active site 561230013248 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 561230013249 sec-independent translocase; Provisional; Region: PRK01770 561230013250 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 561230013251 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 561230013252 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 561230013253 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 561230013254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 561230013255 SCP-2 sterol transfer family; Region: SCP2; pfam02036 561230013256 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 561230013257 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 561230013258 S-adenosylmethionine binding site [chemical binding]; other site 561230013259 DNA recombination protein RmuC; Provisional; Region: PRK10361 561230013260 RmuC family; Region: RmuC; pfam02646 561230013261 argininosuccinate lyase; Provisional; Region: PRK04833 561230013262 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 561230013263 active sites [active] 561230013264 tetramer interface [polypeptide binding]; other site 561230013265 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 561230013266 nucleotide binding site [chemical binding]; other site 561230013267 N-acetyl-L-glutamate binding site [chemical binding]; other site 561230013268 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 561230013269 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 561230013270 acetylornithine deacetylase; Provisional; Region: PRK05111 561230013271 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 561230013272 metal binding site [ion binding]; metal-binding site 561230013273 putative dimer interface [polypeptide binding]; other site 561230013274 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 561230013275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561230013276 DNA-binding site [nucleotide binding]; DNA binding site 561230013277 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 561230013278 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 561230013279 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 561230013280 putative active site pocket [active] 561230013281 putative metal binding site [ion binding]; other site 561230013282 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 561230013283 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 561230013284 active site turn [active] 561230013285 phosphorylation site [posttranslational modification] 561230013286 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561230013287 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 561230013288 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 561230013289 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 561230013290 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 561230013291 uridine phosphorylase; Provisional; Region: PRK11178 561230013292 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 561230013293 Predicted transcriptional regulator [Transcription]; Region: COG2378 561230013294 HTH domain; Region: HTH_11; pfam08279 561230013295 WYL domain; Region: WYL; pfam13280 561230013296 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 561230013297 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561230013298 CHASE3 domain; Region: CHASE3; cl05000 561230013299 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230013300 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 561230013301 dimerization interface [polypeptide binding]; other site 561230013302 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230013303 dimer interface [polypeptide binding]; other site 561230013304 putative CheW interface [polypeptide binding]; other site 561230013305 CHASE3 domain; Region: CHASE3; cl05000 561230013306 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561230013307 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 561230013308 dimerization interface [polypeptide binding]; other site 561230013309 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230013310 dimer interface [polypeptide binding]; other site 561230013311 putative CheW interface [polypeptide binding]; other site 561230013312 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 561230013313 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 561230013314 THF binding site; other site 561230013315 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 561230013316 substrate binding site [chemical binding]; other site 561230013317 THF binding site; other site 561230013318 zinc-binding site [ion binding]; other site 561230013319 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 561230013320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230013321 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 561230013322 putative dimerization interface [polypeptide binding]; other site 561230013323 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 561230013324 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 561230013325 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561230013326 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 561230013327 serine acetyltransferase; Provisional; Region: cysE; PRK11132 561230013328 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 561230013329 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 561230013330 trimer interface [polypeptide binding]; other site 561230013331 active site 561230013332 substrate binding site [chemical binding]; other site 561230013333 CoA binding site [chemical binding]; other site 561230013334 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 561230013335 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 561230013336 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 561230013337 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 561230013338 SecA binding site; other site 561230013339 Preprotein binding site; other site 561230013340 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 561230013341 active site residue [active] 561230013342 AmiB activator; Provisional; Region: PRK11637 561230013343 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 561230013344 Peptidase family M23; Region: Peptidase_M23; pfam01551 561230013345 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 561230013346 NodB motif; other site 561230013347 putative active site [active] 561230013348 putative catalytic site [active] 561230013349 Zn binding site [ion binding]; other site 561230013350 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 561230013351 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 561230013352 NAD(P) binding site [chemical binding]; other site 561230013353 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 561230013354 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 561230013355 substrate-cofactor binding pocket; other site 561230013356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561230013357 catalytic residue [active] 561230013358 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 561230013359 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 561230013360 NADP binding site [chemical binding]; other site 561230013361 homopentamer interface [polypeptide binding]; other site 561230013362 substrate binding site [chemical binding]; other site 561230013363 active site 561230013364 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 561230013365 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 561230013366 putative active site [active] 561230013367 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 561230013368 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 561230013369 putative active site [active] 561230013370 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 561230013371 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 561230013372 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 561230013373 putative active site [active] 561230013374 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 561230013375 O-Antigen ligase; Region: Wzy_C; pfam04932 561230013376 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 561230013377 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 561230013378 putative metal binding site; other site 561230013379 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 561230013380 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 561230013381 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 561230013382 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 561230013383 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 561230013384 active site 561230013385 (T/H)XGH motif; other site 561230013386 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 561230013387 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 561230013388 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 561230013389 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 561230013390 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 561230013391 DNA binding site [nucleotide binding] 561230013392 catalytic residue [active] 561230013393 H2TH interface [polypeptide binding]; other site 561230013394 putative catalytic residues [active] 561230013395 turnover-facilitating residue; other site 561230013396 intercalation triad [nucleotide binding]; other site 561230013397 8OG recognition residue [nucleotide binding]; other site 561230013398 putative reading head residues; other site 561230013399 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 561230013400 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 561230013401 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 561230013402 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 561230013403 hypothetical protein; Reviewed; Region: PRK00024 561230013404 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 561230013405 MPN+ (JAMM) motif; other site 561230013406 Zinc-binding site [ion binding]; other site 561230013407 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 561230013408 Flavoprotein; Region: Flavoprotein; pfam02441 561230013409 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 561230013410 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 561230013411 trimer interface [polypeptide binding]; other site 561230013412 active site 561230013413 division inhibitor protein; Provisional; Region: slmA; PRK09480 561230013414 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561230013415 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561230013416 active site 561230013417 ribonuclease PH; Reviewed; Region: rph; PRK00173 561230013418 Ribonuclease PH; Region: RNase_PH_bact; cd11362 561230013419 hexamer interface [polypeptide binding]; other site 561230013420 active site 561230013421 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 561230013422 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 561230013423 active site 561230013424 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 561230013425 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230013426 Walker A/P-loop; other site 561230013427 ATP binding site [chemical binding]; other site 561230013428 Q-loop/lid; other site 561230013429 ABC transporter signature motif; other site 561230013430 Walker B; other site 561230013431 D-loop; other site 561230013432 H-loop/switch region; other site 561230013433 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 561230013434 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230013435 Walker A/P-loop; other site 561230013436 ATP binding site [chemical binding]; other site 561230013437 Q-loop/lid; other site 561230013438 ABC transporter signature motif; other site 561230013439 Walker B; other site 561230013440 D-loop; other site 561230013441 H-loop/switch region; other site 561230013442 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 561230013443 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 561230013444 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 561230013445 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 561230013446 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 561230013447 dimer interface [polypeptide binding]; other site 561230013448 conserved gate region; other site 561230013449 putative PBP binding loops; other site 561230013450 ABC-ATPase subunit interface; other site 561230013451 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 561230013452 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561230013453 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 561230013454 dimer interface [polypeptide binding]; other site 561230013455 conserved gate region; other site 561230013456 putative PBP binding loops; other site 561230013457 ABC-ATPase subunit interface; other site 561230013458 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 561230013459 homodimer interface [polypeptide binding]; other site 561230013460 homotetramer interface [polypeptide binding]; other site 561230013461 active site pocket [active] 561230013462 cleavage site 561230013463 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 561230013464 SxDxEG motif; other site 561230013465 active site 561230013466 metal binding site [ion binding]; metal-binding site 561230013467 homopentamer interface [polypeptide binding]; other site 561230013468 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 561230013469 catalytic nucleophile [active] 561230013470 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230013471 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230013472 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 561230013473 dimerization interface [polypeptide binding]; other site 561230013474 hypothetical protein; Provisional; Region: PRK11820 561230013475 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 561230013476 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 561230013477 BRO family, N-terminal domain; Region: Bro-N; smart01040 561230013478 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 561230013479 non-specific DNA binding site [nucleotide binding]; other site 561230013480 salt bridge; other site 561230013481 sequence-specific DNA binding site [nucleotide binding]; other site 561230013482 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561230013483 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 561230013484 non-specific DNA binding site [nucleotide binding]; other site 561230013485 salt bridge; other site 561230013486 sequence-specific DNA binding site [nucleotide binding]; other site 561230013487 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 561230013488 active site 561230013489 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 561230013490 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 561230013491 Domain of unknown function DUF20; Region: UPF0118; pfam01594 561230013492 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 561230013493 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 561230013494 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 561230013495 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 561230013496 phosphate binding site [ion binding]; other site 561230013497 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 561230013498 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 561230013499 NAD binding site [chemical binding]; other site 561230013500 catalytic residues [active] 561230013501 substrate binding site [chemical binding]; other site 561230013502 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 561230013503 Fatty acid desaturase; Region: FA_desaturase; pfam00487 561230013504 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 561230013505 putative di-iron ligands [ion binding]; other site 561230013506 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 561230013507 Fatty acid desaturase; Region: FA_desaturase; pfam00487 561230013508 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 561230013509 putative di-iron ligands [ion binding]; other site 561230013510 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 561230013511 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 561230013512 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 561230013513 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 561230013514 active site 561230013515 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 561230013516 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 561230013517 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 561230013518 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 561230013519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561230013520 NAD(P) binding site [chemical binding]; other site 561230013521 active site 561230013522 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07204 561230013523 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 561230013524 dimer interface [polypeptide binding]; other site 561230013525 active site 561230013526 CoA binding pocket [chemical binding]; other site 561230013527 GlpM protein; Region: GlpM; pfam06942 561230013528 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 561230013529 putative substrate translocation pore; other site 561230013530 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561230013531 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 561230013532 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561230013533 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561230013534 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 561230013535 putative effector binding pocket; other site 561230013536 dimerization interface [polypeptide binding]; other site 561230013537 acyl-CoA thioesterase; Provisional; Region: PRK10531 561230013538 putative pectinesterase; Region: PLN02432; cl01911 561230013539 Autoinducer binding domain; Region: Autoind_bind; pfam03472 561230013540 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 561230013541 DNA binding residues [nucleotide binding] 561230013542 dimerization interface [polypeptide binding]; other site 561230013543 Autoinducer synthetase; Region: Autoind_synth; pfam00765 561230013544 argininosuccinate synthase; Validated; Region: PRK05370 561230013545 DJ-1 family protein; Region: not_thiJ; TIGR01383 561230013546 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 561230013547 conserved cys residue [active] 561230013548 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 561230013549 putative dimerization interface [polypeptide binding]; other site 561230013550 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561230013551 putative ligand binding site [chemical binding]; other site 561230013552 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230013553 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561230013554 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561230013555 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230013556 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 561230013557 TM-ABC transporter signature motif; other site 561230013558 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 561230013559 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561230013560 Walker A/P-loop; other site 561230013561 ATP binding site [chemical binding]; other site 561230013562 Q-loop/lid; other site 561230013563 ABC transporter signature motif; other site 561230013564 Walker B; other site 561230013565 D-loop; other site 561230013566 H-loop/switch region; other site 561230013567 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561230013568 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 561230013569 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 561230013570 putative ligand binding site [chemical binding]; other site 561230013571 xylose isomerase; Provisional; Region: PRK05474 561230013572 xylose isomerase; Region: xylose_isom_A; TIGR02630 561230013573 xylulokinase; Provisional; Region: PRK15027 561230013574 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 561230013575 N- and C-terminal domain interface [polypeptide binding]; other site 561230013576 active site 561230013577 MgATP binding site [chemical binding]; other site 561230013578 catalytic site [active] 561230013579 metal binding site [ion binding]; metal-binding site 561230013580 xylulose binding site [chemical binding]; other site 561230013581 homodimer interface [polypeptide binding]; other site 561230013582 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 561230013583 Acyltransferase family; Region: Acyl_transf_3; pfam01757 561230013584 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 561230013585 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 561230013586 NAD(P) binding site [chemical binding]; other site 561230013587 catalytic residues [active] 561230013588 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 561230013589 superoxide dismutase; Provisional; Region: PRK10925 561230013590 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 561230013591 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 561230013592 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 561230013593 dimerization interface [polypeptide binding]; other site 561230013594 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230013595 dimer interface [polypeptide binding]; other site 561230013596 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561230013597 putative CheW interface [polypeptide binding]; other site 561230013598 hypothetical protein; Provisional; Region: PRK11020 561230013599 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 561230013600 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 561230013601 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 561230013602 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561230013603 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561230013604 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 561230013605 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 561230013606 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 561230013607 active site 561230013608 P-loop; other site 561230013609 phosphorylation site [posttranslational modification] 561230013610 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 561230013611 active site 561230013612 phosphorylation site [posttranslational modification] 561230013613 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 561230013614 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 561230013615 DALR anticodon binding domain; Region: DALR_1; pfam05746 561230013616 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 561230013617 dimer interface [polypeptide binding]; other site 561230013618 motif 1; other site 561230013619 active site 561230013620 motif 2; other site 561230013621 motif 3; other site 561230013622 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561230013623 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 561230013624 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561230013625 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230013626 Coenzyme A binding pocket [chemical binding]; other site 561230013627 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561230013628 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 561230013629 dimerization interface [polypeptide binding]; other site 561230013630 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561230013631 dimer interface [polypeptide binding]; other site 561230013632 putative CheW interface [polypeptide binding]; other site 561230013633 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 561230013634 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 561230013635 dimerization interface [polypeptide binding]; other site 561230013636 ligand binding site [chemical binding]; other site 561230013637 NADP binding site [chemical binding]; other site 561230013638 catalytic site [active] 561230013639 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561230013640 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 561230013641 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561230013642 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 561230013643 dimer interface [polypeptide binding]; other site 561230013644 conserved gate region; other site 561230013645 putative PBP binding loops; other site 561230013646 ABC-ATPase subunit interface; other site 561230013647 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 561230013648 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 561230013649 putative PBP binding loops; other site 561230013650 dimer interface [polypeptide binding]; other site 561230013651 ABC-ATPase subunit interface; other site 561230013652 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561230013653 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230013654 Walker A/P-loop; other site 561230013655 ATP binding site [chemical binding]; other site 561230013656 Q-loop/lid; other site 561230013657 ABC transporter signature motif; other site 561230013658 Walker B; other site 561230013659 D-loop; other site 561230013660 H-loop/switch region; other site 561230013661 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230013662 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561230013663 Walker A/P-loop; other site 561230013664 ATP binding site [chemical binding]; other site 561230013665 Q-loop/lid; other site 561230013666 ABC transporter signature motif; other site 561230013667 Walker B; other site 561230013668 D-loop; other site 561230013669 H-loop/switch region; other site 561230013670 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561230013671 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 561230013672 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 561230013673 CMD domain protein, Avi_7170 family; Region: CMD_Avi_7170; TIGR04029 561230013674 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 561230013675 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 561230013676 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561230013677 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 561230013678 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 561230013679 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 561230013680 dimerization domain [polypeptide binding]; other site 561230013681 dimer interface [polypeptide binding]; other site 561230013682 catalytic residues [active] 561230013683 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 561230013684 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 561230013685 FAD binding pocket [chemical binding]; other site 561230013686 FAD binding motif [chemical binding]; other site 561230013687 phosphate binding motif [ion binding]; other site 561230013688 NAD binding pocket [chemical binding]; other site 561230013689 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 561230013690 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 561230013691 glutathione reductase; Validated; Region: PRK06116 561230013692 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561230013693 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230013694 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 561230013695 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 561230013696 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 561230013697 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 561230013698 HSP70 interaction site [polypeptide binding]; other site 561230013699 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 561230013700 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 561230013701 nucleotide binding site [chemical binding]; other site 561230013702 putative NEF/HSP70 interaction site [polypeptide binding]; other site 561230013703 SBD interface [polypeptide binding]; other site 561230013704 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 561230013705 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 561230013706 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 561230013707 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 561230013708 FecR protein; Region: FecR; pfam04773 561230013709 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 561230013710 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561230013711 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 561230013712 DNA binding residues [nucleotide binding] 561230013713 Secretin and TonB N terminus short domain; Region: STN; smart00965 561230013714 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 561230013715 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 561230013716 N-terminal plug; other site 561230013717 ligand-binding site [chemical binding]; other site 561230013718 oligopeptidase A; Provisional; Region: PRK10911 561230013719 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 561230013720 active site 561230013721 Zn binding site [ion binding]; other site 561230013722 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 561230013723 S-adenosylmethionine binding site [chemical binding]; other site 561230013724 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 561230013725 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 561230013726 active site 561230013727 metal binding site [ion binding]; metal-binding site 561230013728 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 561230013729 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 561230013730 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 561230013731 glutamate dehydrogenase; Provisional; Region: PRK09414 561230013732 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 561230013733 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 561230013734 NAD(P) binding site [chemical binding]; other site 561230013735 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 561230013736 Ligand Binding Site [chemical binding]; other site 561230013737 universal stress protein UspB; Provisional; Region: PRK04960 561230013738 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 561230013739 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 561230013740 Predicted flavoproteins [General function prediction only]; Region: COG2081 561230013741 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561230013742 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 561230013743 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 561230013744 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 561230013745 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 561230013746 phosphoethanolamine transferase; Provisional; Region: PRK11560 561230013747 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 561230013748 Sulfatase; Region: Sulfatase; pfam00884 561230013749 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 561230013750 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 561230013751 nucleotide binding pocket [chemical binding]; other site 561230013752 K-X-D-G motif; other site 561230013753 catalytic site [active] 561230013754 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 561230013755 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 561230013756 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 561230013757 catalytic site [active] 561230013758 G-X2-G-X-G-K; other site 561230013759 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 561230013760 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 561230013761 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561230013762 Zn2+ binding site [ion binding]; other site 561230013763 Mg2+ binding site [ion binding]; other site 561230013764 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 561230013765 synthetase active site [active] 561230013766 NTP binding site [chemical binding]; other site 561230013767 metal binding site [ion binding]; metal-binding site 561230013768 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 561230013769 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 561230013770 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 561230013771 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561230013772 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 561230013773 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 561230013774 Y-family of DNA polymerases; Region: PolY; cl12025 561230013775 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 561230013776 generic binding surface II; other site 561230013777 ssDNA binding site; other site 561230013778 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 561230013779 ATP binding site [chemical binding]; other site 561230013780 putative Mg++ binding site [ion binding]; other site 561230013781 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 561230013782 nucleotide binding region [chemical binding]; other site 561230013783 ATP-binding site [chemical binding]; other site 561230013784 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 561230013785 AsmA family; Region: AsmA; pfam05170 561230013786 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 561230013787 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 561230013788 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561230013789 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561230013790 Coenzyme A binding pocket [chemical binding]; other site 561230013791 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 561230013792 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 561230013793 putative active site [active] 561230013794 dimerization interface [polypeptide binding]; other site 561230013795 putative tRNAtyr binding site [nucleotide binding]; other site 561230013796 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 561230013797 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 561230013798 motif II; other site 561230013799 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 561230013800 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 561230013801 G1 box; other site 561230013802 putative GEF interaction site [polypeptide binding]; other site 561230013803 GTP/Mg2+ binding site [chemical binding]; other site 561230013804 Switch I region; other site 561230013805 G2 box; other site 561230013806 G3 box; other site 561230013807 Switch II region; other site 561230013808 G4 box; other site 561230013809 G5 box; other site 561230013810 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 561230013811 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 561230013812 glutamine synthetase; Provisional; Region: glnA; PRK09469 561230013813 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 561230013814 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 561230013815 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 561230013816 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 561230013817 dimer interface [polypeptide binding]; other site 561230013818 phosphorylation site [posttranslational modification] 561230013819 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 561230013820 ATP binding site [chemical binding]; other site 561230013821 Mg2+ binding site [ion binding]; other site 561230013822 G-X-G motif; other site 561230013823 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 561230013824 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230013825 active site 561230013826 phosphorylation site [posttranslational modification] 561230013827 intermolecular recognition site; other site 561230013828 dimerization interface [polypeptide binding]; other site 561230013829 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 561230013830 Walker A motif; other site 561230013831 ATP binding site [chemical binding]; other site 561230013832 Walker B motif; other site 561230013833 arginine finger; other site 561230013834 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 561230013835 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 561230013836 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 561230013837 FeS/SAM binding site; other site 561230013838 HemN C-terminal domain; Region: HemN_C; pfam06969 561230013839 Der GTPase activator; Provisional; Region: PRK05244 561230013840 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 561230013841 G1 box; other site 561230013842 GTP/Mg2+ binding site [chemical binding]; other site 561230013843 Switch I region; other site 561230013844 G2 box; other site 561230013845 G3 box; other site 561230013846 Switch II region; other site 561230013847 G4 box; other site 561230013848 G5 box; other site 561230013849 DNA polymerase I; Provisional; Region: PRK05755 561230013850 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 561230013851 active site 561230013852 metal binding site 1 [ion binding]; metal-binding site 561230013853 putative 5' ssDNA interaction site; other site 561230013854 metal binding site 3; metal-binding site 561230013855 metal binding site 2 [ion binding]; metal-binding site 561230013856 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 561230013857 putative DNA binding site [nucleotide binding]; other site 561230013858 putative metal binding site [ion binding]; other site 561230013859 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 561230013860 active site 561230013861 catalytic site [active] 561230013862 substrate binding site [chemical binding]; other site 561230013863 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 561230013864 active site 561230013865 DNA binding site [nucleotide binding] 561230013866 catalytic site [active] 561230013867 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 561230013868 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 561230013869 catalytic residues [active] 561230013870 hinge region; other site 561230013871 alpha helical domain; other site 561230013872 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 561230013873 serine/threonine protein kinase; Provisional; Region: PRK11768 561230013874 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 561230013875 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 561230013876 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 561230013877 GTP binding site; other site 561230013878 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 561230013879 Walker A motif; other site 561230013880 transcriptional repressor RbsR; Provisional; Region: PRK10423 561230013881 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561230013882 DNA binding site [nucleotide binding] 561230013883 domain linker motif; other site 561230013884 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 561230013885 dimerization interface [polypeptide binding]; other site 561230013886 ligand binding site [chemical binding]; other site 561230013887 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561230013888 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 561230013889 substrate binding site [chemical binding]; other site 561230013890 dimer interface [polypeptide binding]; other site 561230013891 ATP binding site [chemical binding]; other site 561230013892 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 561230013893 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 561230013894 ligand binding site [chemical binding]; other site 561230013895 dimerization interface [polypeptide binding]; other site 561230013896 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561230013897 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 561230013898 TM-ABC transporter signature motif; other site 561230013899 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 561230013900 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561230013901 Walker A/P-loop; other site 561230013902 ATP binding site [chemical binding]; other site 561230013903 Q-loop/lid; other site 561230013904 ABC transporter signature motif; other site 561230013905 Walker B; other site 561230013906 D-loop; other site 561230013907 H-loop/switch region; other site 561230013908 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561230013909 D-ribose pyranase; Provisional; Region: PRK11797 561230013910 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 561230013911 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 561230013912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 561230013913 active site 561230013914 phosphorylation site [posttranslational modification] 561230013915 intermolecular recognition site; other site 561230013916 dimerization interface [polypeptide binding]; other site 561230013917 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 561230013918 DNA binding site [nucleotide binding] 561230013919 sensor protein QseC; Provisional; Region: PRK10337 561230013920 HAMP domain; Region: HAMP; pfam00672 561230013921 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 561230013922 dimer interface [polypeptide binding]; other site 561230013923 phosphorylation site [posttranslational modification] 561230013924 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 561230013925 ATP binding site [chemical binding]; other site 561230013926 Mg2+ binding site [ion binding]; other site 561230013927 G-X-G motif; other site 561230013928 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 561230013929 potassium uptake protein; Region: kup; TIGR00794 561230013930 regulatory ATPase RavA; Provisional; Region: PRK13531 561230013931 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 561230013932 Walker A motif; other site 561230013933 ATP binding site [chemical binding]; other site 561230013934 Walker B motif; other site 561230013935 arginine finger; other site 561230013936 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 561230013937 hypothetical protein; Provisional; Region: yieM; PRK10997 561230013938 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 561230013939 metal ion-dependent adhesion site (MIDAS); other site 561230013940 Asparagine synthetase A [Amino acid transport and metabolism]; Region: AsnA; COG2502 561230013941 motif 1; other site 561230013942 dimer interface [polypeptide binding]; other site 561230013943 active site 561230013944 motif 2; other site 561230013945 motif 3; other site 561230013946 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 561230013947 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 561230013948 putative DNA binding site [nucleotide binding]; other site 561230013949 putative Zn2+ binding site [ion binding]; other site 561230013950 AsnC family; Region: AsnC_trans_reg; pfam01037 561230013951 FMN-binding protein MioC; Provisional; Region: PRK09004 561230013952 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 561230013953 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 561230013954 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 561230013955 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 561230013956 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 561230013957 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 561230013958 S-adenosylmethionine binding site [chemical binding]; other site 561230013959 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 561230013960 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 561230013961 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 561230013962 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 561230013963 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 561230013964 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 561230013965 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 561230013966 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 561230013967 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 561230013968 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 561230013969 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 561230013970 beta subunit interaction interface [polypeptide binding]; other site 561230013971 Walker A motif; other site 561230013972 ATP binding site [chemical binding]; other site 561230013973 Walker B motif; other site 561230013974 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 561230013975 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 561230013976 core domain interface [polypeptide binding]; other site 561230013977 delta subunit interface [polypeptide binding]; other site 561230013978 epsilon subunit interface [polypeptide binding]; other site 561230013979 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 561230013980 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 561230013981 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 561230013982 alpha subunit interaction interface [polypeptide binding]; other site 561230013983 Walker A motif; other site 561230013984 ATP binding site [chemical binding]; other site 561230013985 Walker B motif; other site 561230013986 inhibitor binding site; inhibition site 561230013987 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 561230013988 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 561230013989 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 561230013990 gamma subunit interface [polypeptide binding]; other site 561230013991 epsilon subunit interface [polypeptide binding]; other site 561230013992 LBP interface [polypeptide binding]; other site 561230013993 Right handed beta helix region; Region: Beta_helix; pfam13229 561230013994 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 561230013995 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 561230013996 Substrate binding site; other site 561230013997 Mg++ binding site; other site 561230013998 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 561230013999 active site 561230014000 substrate binding site [chemical binding]; other site 561230014001 CoA binding site [chemical binding]; other site 561230014002 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 561230014003 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 561230014004 glutaminase active site [active] 561230014005 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 561230014006 dimer interface [polypeptide binding]; other site 561230014007 active site 561230014008 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 561230014009 dimer interface [polypeptide binding]; other site 561230014010 active site 561230014011 Protein of unknown function (DUF4026); Region: DUF4026; pfam13218 561230014012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 561230014013 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 561230014014 substrate binding pocket [chemical binding]; other site 561230014015 membrane-bound complex binding site; other site 561230014016 hinge residues; other site 561230014017 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 561230014018 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 561230014019 dimer interface [polypeptide binding]; other site 561230014020 conserved gate region; other site 561230014021 putative PBP binding loops; other site 561230014022 ABC-ATPase subunit interface; other site 561230014023 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 561230014024 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 561230014025 dimer interface [polypeptide binding]; other site 561230014026 conserved gate region; other site 561230014027 putative PBP binding loops; other site 561230014028 ABC-ATPase subunit interface; other site 561230014029 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 561230014030 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 561230014031 Walker A/P-loop; other site 561230014032 ATP binding site [chemical binding]; other site 561230014033 Q-loop/lid; other site 561230014034 ABC transporter signature motif; other site 561230014035 Walker B; other site 561230014036 D-loop; other site 561230014037 H-loop/switch region; other site 561230014038 transcriptional regulator PhoU; Provisional; Region: PRK11115 561230014039 PhoU domain; Region: PhoU; pfam01895 561230014040 PhoU domain; Region: PhoU; pfam01895 561230014041 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 561230014042 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 561230014043 non-specific DNA binding site [nucleotide binding]; other site 561230014044 salt bridge; other site 561230014045 sequence-specific DNA binding site [nucleotide binding]; other site 561230014046 Cupin domain; Region: Cupin_2; pfam07883 561230014047 benzoate transporter; Region: benE; TIGR00843 561230014048 Benzoate membrane transport protein; Region: BenE; pfam03594 561230014049 Protein of unknown function (DUF535); Region: DUF535; pfam04393 561230014050 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561230014051 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 561230014052 substrate binding pocket [chemical binding]; other site 561230014053 membrane-bound complex binding site; other site 561230014054 hinge residues; other site 561230014055 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 561230014056 dimer interface [polypeptide binding]; other site 561230014057 conserved gate region; other site 561230014058 putative PBP binding loops; other site 561230014059 ABC-ATPase subunit interface; other site 561230014060 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 561230014061 dimer interface [polypeptide binding]; other site 561230014062 conserved gate region; other site 561230014063 putative PBP binding loops; other site 561230014064 ABC-ATPase subunit interface; other site 561230014065 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 561230014066 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 561230014067 active site 561230014068 motif I; other site 561230014069 motif II; other site 561230014070 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 561230014071 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 561230014072 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 561230014073 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 561230014074 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 561230014075 4Fe-4S binding domain; Region: Fer4; pfam00037 561230014076 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 561230014077 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561230014078 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561230014079 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 561230014080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 561230014081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 561230014082 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 561230014083 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 561230014084 putative substrate translocation pore; other site 561230014085 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 561230014086 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561230014087 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561230014088 metal binding site [ion binding]; metal-binding site 561230014089 active site 561230014090 I-site; other site 561230014091 WYL domain; Region: WYL; pfam13280 561230014092 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 561230014093 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 561230014094 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 561230014095 putative active site [active] 561230014096 putative metal binding site [ion binding]; other site 561230014097 N-glycosyltransferase; Provisional; Region: PRK11204 561230014098 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 561230014099 DXD motif; other site 561230014100 poly-beta-1,6-N-acetyl-D-glucosamine biosynthesis protein PgaD; Region: PGA_PgaD; TIGR03940 561230014101 Predicted transcriptional regulators [Transcription]; Region: COG1733 561230014102 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 561230014103 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 561230014104 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 561230014105 NADP binding site [chemical binding]; other site 561230014106 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 561230014107 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 561230014108 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 561230014109 trmE is a tRNA modification GTPase; Region: trmE; cd04164 561230014110 G1 box; other site 561230014111 GTP/Mg2+ binding site [chemical binding]; other site 561230014112 Switch I region; other site 561230014113 G2 box; other site 561230014114 Switch II region; other site 561230014115 G3 box; other site 561230014116 G4 box; other site 561230014117 G5 box; other site 561230014118 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 561230014119 membrane protein insertase; Provisional; Region: PRK01318 561230014120 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 561230014121 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399