-- dump date 20140620_062102 -- class Genbank::misc_feature -- table misc_feature_note -- id note 927704000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 927704000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 927704000003 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 927704000004 Walker A motif; other site 927704000005 ATP binding site [chemical binding]; other site 927704000006 Walker B motif; other site 927704000007 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 927704000008 DnaA box-binding interface [nucleotide binding]; other site 927704000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 927704000010 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 927704000011 putative DNA binding surface [nucleotide binding]; other site 927704000012 dimer interface [polypeptide binding]; other site 927704000013 beta-clamp/clamp loader binding surface; other site 927704000014 beta-clamp/translesion DNA polymerase binding surface; other site 927704000015 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 927704000016 RNA binding surface [nucleotide binding]; other site 927704000017 recombination protein F; Reviewed; Region: recF; PRK00064 927704000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 927704000019 Walker A/P-loop; other site 927704000020 ATP binding site [chemical binding]; other site 927704000021 Q-loop/lid; other site 927704000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704000023 ABC transporter signature motif; other site 927704000024 Walker B; other site 927704000025 D-loop; other site 927704000026 H-loop/switch region; other site 927704000027 Protein of unknown function (DUF721); Region: DUF721; pfam05258 927704000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 927704000029 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 927704000030 Mg2+ binding site [ion binding]; other site 927704000031 G-X-G motif; other site 927704000032 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 927704000033 anchoring element; other site 927704000034 dimer interface [polypeptide binding]; other site 927704000035 ATP binding site [chemical binding]; other site 927704000036 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 927704000037 active site 927704000038 putative metal-binding site [ion binding]; other site 927704000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 927704000040 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 927704000041 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 927704000042 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 927704000043 DHH family; Region: DHH; pfam01368 927704000044 DHHA1 domain; Region: DHHA1; pfam02272 927704000045 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 927704000046 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 927704000047 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 927704000048 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 927704000049 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 927704000050 Walker A motif; other site 927704000051 ATP binding site [chemical binding]; other site 927704000052 Walker B motif; other site 927704000053 arginine finger; other site 927704000054 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 927704000055 replicative DNA helicase; Region: DnaB; TIGR00665 927704000056 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 927704000057 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 927704000058 Walker A motif; other site 927704000059 ATP binding site [chemical binding]; other site 927704000060 Walker B motif; other site 927704000061 DNA binding loops [nucleotide binding] 927704000062 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 927704000063 HPr interaction site; other site 927704000064 glycerol kinase (GK) interaction site [polypeptide binding]; other site 927704000065 active site 927704000066 phosphorylation site [posttranslational modification] 927704000067 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 927704000068 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 927704000069 active site turn [active] 927704000070 phosphorylation site [posttranslational modification] 927704000071 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 927704000072 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 927704000073 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 927704000074 substrate binding [chemical binding]; other site 927704000075 active site 927704000076 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 927704000077 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 927704000078 M48 family peptidase; Provisional; Region: PRK03001 927704000079 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 927704000080 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 927704000081 active site 927704000082 threonine synthase; Validated; Region: PRK06450 927704000083 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 927704000084 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 927704000085 catalytic residue [active] 927704000086 exopolyphosphatase; Region: exo_poly_only; TIGR03706 927704000087 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 927704000088 Cache domain; Region: Cache_1; pfam02743 927704000089 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 927704000090 dimerization interface [polypeptide binding]; other site 927704000091 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704000092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704000093 metal binding site [ion binding]; metal-binding site 927704000094 active site 927704000095 I-site; other site 927704000096 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 927704000097 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 927704000098 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 927704000099 BON domain; Region: BON; pfam04972 927704000100 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 927704000101 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 927704000102 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 927704000103 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704000104 P-loop; other site 927704000105 Magnesium ion binding site [ion binding]; other site 927704000106 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 927704000107 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704000108 active site 927704000109 phosphorylation site [posttranslational modification] 927704000110 intermolecular recognition site; other site 927704000111 dimerization interface [polypeptide binding]; other site 927704000112 AAA domain; Region: AAA_31; pfam13614 927704000113 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 927704000114 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 927704000115 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 927704000116 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 927704000117 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 927704000118 ATP binding site [chemical binding]; other site 927704000119 Walker A motif; other site 927704000120 hexamer interface [polypeptide binding]; other site 927704000121 Walker B motif; other site 927704000122 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 927704000123 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 927704000124 DNA gyrase subunit A; Validated; Region: PRK05560 927704000125 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 927704000126 CAP-like domain; other site 927704000127 active site 927704000128 primary dimer interface [polypeptide binding]; other site 927704000129 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 927704000130 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 927704000131 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 927704000132 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 927704000133 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 927704000134 Nitroreductase-like family 3. 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_3; cd02139 927704000135 putative FMN binding site [chemical binding]; other site 927704000136 Malic enzyme, N-terminal domain; Region: malic; pfam00390 927704000137 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 927704000138 putative NAD(P) binding site [chemical binding]; other site 927704000139 Transcriptional regulator [Transcription]; Region: LytR; COG1316 927704000140 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 927704000141 putative active site [active] 927704000142 putative metal binding residues [ion binding]; other site 927704000143 signature motif; other site 927704000144 putative dimer interface [polypeptide binding]; other site 927704000145 putative phosphate binding site [ion binding]; other site 927704000146 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 927704000147 MgtC family; Region: MgtC; pfam02308 927704000148 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 927704000149 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 927704000150 active site 927704000151 catalytic motif [active] 927704000152 Zn binding site [ion binding]; other site 927704000153 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 927704000154 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 927704000155 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 927704000156 active site 927704000157 phosphorylation site [posttranslational modification] 927704000158 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 927704000159 active site 927704000160 P-loop; other site 927704000161 phosphorylation site [posttranslational modification] 927704000162 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 927704000163 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 927704000164 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 927704000165 putative substrate binding site [chemical binding]; other site 927704000166 putative ATP binding site [chemical binding]; other site 927704000167 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 927704000168 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 927704000169 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 927704000170 Uncharacterized conserved protein [Function unknown]; Region: COG1284 927704000171 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 927704000172 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 927704000173 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 927704000174 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_cladeD; cd03379 927704000175 active site clefts [active] 927704000176 zinc binding site [ion binding]; other site 927704000177 dimer interface [polypeptide binding]; other site 927704000178 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 927704000179 Protein of unknown function (DUF997); Region: DUF997; cl01614 927704000180 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 927704000181 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 927704000182 Na binding site [ion binding]; other site 927704000183 AzlC protein; Region: AzlC; pfam03591 927704000184 Uncharacterized conserved protein [Function unknown]; Region: COG2966 927704000185 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 927704000186 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 927704000187 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 927704000188 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 927704000189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704000190 Walker A/P-loop; other site 927704000191 ATP binding site [chemical binding]; other site 927704000192 Q-loop/lid; other site 927704000193 ABC transporter signature motif; other site 927704000194 Walker B; other site 927704000195 D-loop; other site 927704000196 H-loop/switch region; other site 927704000197 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 927704000198 dimer interface [polypeptide binding]; other site 927704000199 active site 927704000200 Transcriptional regulators [Transcription]; Region: PurR; COG1609 927704000201 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 927704000202 DNA binding site [nucleotide binding] 927704000203 domain linker motif; other site 927704000204 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 927704000205 ligand binding site [chemical binding]; other site 927704000206 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 927704000207 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 927704000208 putative substrate translocation pore; other site 927704000209 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 927704000210 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 927704000211 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 927704000212 N- and C-terminal domain interface [polypeptide binding]; other site 927704000213 active site 927704000214 MgATP binding site [chemical binding]; other site 927704000215 catalytic site [active] 927704000216 metal binding site [ion binding]; metal-binding site 927704000217 xylulose binding site [chemical binding]; other site 927704000218 homodimer interface [polypeptide binding]; other site 927704000219 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 927704000220 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 927704000221 hexamer (dimer of trimers) interface [polypeptide binding]; other site 927704000222 substrate binding site [chemical binding]; other site 927704000223 trimer interface [polypeptide binding]; other site 927704000224 Mn binding site [ion binding]; other site 927704000225 Transposase domain (DUF772); Region: DUF772; pfam05598 927704000226 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 927704000227 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 927704000228 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 927704000229 active site 927704000230 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 927704000231 substrate binding site [chemical binding]; other site 927704000232 metal binding site [ion binding]; metal-binding site 927704000233 Transcriptional regulators [Transcription]; Region: FadR; COG2186 927704000234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 927704000235 DNA-binding site [nucleotide binding]; DNA binding site 927704000236 FCD domain; Region: FCD; pfam07729 927704000237 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 927704000238 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 927704000239 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 927704000240 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 927704000241 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 927704000242 Cysteine-rich domain; Region: CCG; pfam02754 927704000243 Cysteine-rich domain; Region: CCG; pfam02754 927704000244 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 927704000245 TrkA-N domain; Region: TrkA_N; pfam02254 927704000246 TrkA-C domain; Region: TrkA_C; pfam02080 927704000247 TrkA-N domain; Region: TrkA_N; pfam02254 927704000248 TrkA-C domain; Region: TrkA_C; pfam02080 927704000249 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 927704000250 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 927704000251 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 927704000252 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 927704000253 Predicted permeases [General function prediction only]; Region: COG0679 927704000254 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 927704000255 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 927704000256 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 927704000257 putative ligand binding site [chemical binding]; other site 927704000258 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 927704000259 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 927704000260 Walker A/P-loop; other site 927704000261 ATP binding site [chemical binding]; other site 927704000262 Q-loop/lid; other site 927704000263 ABC transporter signature motif; other site 927704000264 Walker B; other site 927704000265 D-loop; other site 927704000266 H-loop/switch region; other site 927704000267 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 927704000268 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 927704000269 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 927704000270 TM-ABC transporter signature motif; other site 927704000271 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 927704000272 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 927704000273 TM-ABC transporter signature motif; other site 927704000274 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 927704000275 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 927704000276 N- and C-terminal domain interface [polypeptide binding]; other site 927704000277 active site 927704000278 catalytic site [active] 927704000279 metal binding site [ion binding]; metal-binding site 927704000280 carbohydrate binding site [chemical binding]; other site 927704000281 ATP binding site [chemical binding]; other site 927704000282 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 927704000283 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 927704000284 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 927704000285 fructuronate transporter; Provisional; Region: PRK10034; cl15264 927704000286 GntP family permease; Region: GntP_permease; pfam02447 927704000287 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 927704000288 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 927704000289 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 927704000290 putative active site [active] 927704000291 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 927704000292 anti sigma factor interaction site; other site 927704000293 regulatory phosphorylation site [posttranslational modification]; other site 927704000294 Fibrobacter succinogenes paralogous family TIGR02172; Region: Fb_sc_TIGR02172 927704000295 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 927704000296 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 927704000297 active site 927704000298 multimer interface [polypeptide binding]; other site 927704000299 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 927704000300 predicted active site [active] 927704000301 catalytic triad [active] 927704000302 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 927704000303 DNA-binding site [nucleotide binding]; DNA binding site 927704000304 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 927704000305 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 927704000306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704000307 homodimer interface [polypeptide binding]; other site 927704000308 catalytic residue [active] 927704000309 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 927704000310 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 927704000311 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 927704000312 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 927704000313 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 927704000314 active site 927704000315 catalytic site [active] 927704000316 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 927704000317 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 927704000318 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 927704000319 putative substrate translocation pore; other site 927704000320 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 927704000321 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 927704000322 active site 927704000323 motif I; other site 927704000324 motif II; other site 927704000325 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 927704000326 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 927704000327 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 927704000328 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 927704000329 binding surface 927704000330 TPR motif; other site 927704000331 Protein of unknown function (DUF1266); Region: DUF1266; cl14673 927704000332 MraW methylase family; Region: Methyltransf_5; cl17771 927704000333 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 927704000334 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 927704000335 substrate binding pocket [chemical binding]; other site 927704000336 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 927704000337 membrane-bound complex binding site; other site 927704000338 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 927704000339 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 927704000340 FeS assembly ATPase SufC; Region: sufC; TIGR01978 927704000341 Walker A/P-loop; other site 927704000342 ATP binding site [chemical binding]; other site 927704000343 Q-loop/lid; other site 927704000344 ABC transporter signature motif; other site 927704000345 Walker B; other site 927704000346 D-loop; other site 927704000347 H-loop/switch region; other site 927704000348 FeS assembly protein SufB; Region: sufB; TIGR01980 927704000349 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 927704000350 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 927704000351 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 927704000352 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 927704000353 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 927704000354 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 927704000355 catalytic residue [active] 927704000356 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 927704000357 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 927704000358 trimerization site [polypeptide binding]; other site 927704000359 active site 927704000360 Flavin Reductases; Region: FlaRed; cl00801 927704000361 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 927704000362 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 927704000363 ligand binding site [chemical binding]; other site 927704000364 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 927704000365 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 927704000366 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 927704000367 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 927704000368 ligand binding site [chemical binding]; other site 927704000369 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 927704000370 Histidine kinase; Region: HisKA_3; pfam07730 927704000371 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 927704000372 ATP binding site [chemical binding]; other site 927704000373 Mg2+ binding site [ion binding]; other site 927704000374 G-X-G motif; other site 927704000375 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 927704000376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704000377 active site 927704000378 phosphorylation site [posttranslational modification] 927704000379 intermolecular recognition site; other site 927704000380 dimerization interface [polypeptide binding]; other site 927704000381 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 927704000382 DNA binding residues [nucleotide binding] 927704000383 dimerization interface [polypeptide binding]; other site 927704000384 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 927704000385 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 927704000386 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 927704000387 HPr interaction site; other site 927704000388 glycerol kinase (GK) interaction site [polypeptide binding]; other site 927704000389 active site 927704000390 phosphorylation site [posttranslational modification] 927704000391 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 927704000392 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 927704000393 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 927704000394 hypothetical protein; Provisional; Region: PRK10621 927704000395 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 927704000396 xanthine permease; Region: pbuX; TIGR03173 927704000397 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 927704000398 active site 927704000399 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 927704000400 active site flap/lid [active] 927704000401 nucleophilic elbow; other site 927704000402 catalytic triad [active] 927704000403 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 927704000404 Uncharacterized conserved protein [Function unknown]; Region: COG2006 927704000405 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 927704000406 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 927704000407 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 927704000408 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 927704000409 domain interfaces; other site 927704000410 active site 927704000411 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 927704000412 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 927704000413 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 927704000414 protein binding site [polypeptide binding]; other site 927704000415 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 927704000416 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 927704000417 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 927704000418 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 927704000419 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 927704000420 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 927704000421 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 927704000422 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 927704000423 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 927704000424 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 927704000425 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 927704000426 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 927704000427 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 927704000428 altronate oxidoreductase; Provisional; Region: PRK03643 927704000429 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 927704000430 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 927704000431 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 927704000432 galactarate dehydratase; Region: galactar-dH20; TIGR03248 927704000433 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 927704000434 Glucuronate isomerase; Region: UxaC; pfam02614 927704000435 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 927704000436 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 927704000437 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 927704000438 active site 927704000439 intersubunit interface [polypeptide binding]; other site 927704000440 catalytic residue [active] 927704000441 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 927704000442 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 927704000443 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 927704000444 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 927704000445 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 927704000446 S-layer homology domain; Region: SLH; pfam00395 927704000447 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 927704000448 Interdomain contacts; other site 927704000449 Cytokine receptor motif; other site 927704000450 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 927704000451 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 927704000452 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 927704000453 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 927704000454 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 927704000455 substrate binding site [chemical binding]; other site 927704000456 ATP binding site [chemical binding]; other site 927704000457 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 927704000458 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 927704000459 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 927704000460 NADP binding site [chemical binding]; other site 927704000461 homodimer interface [polypeptide binding]; other site 927704000462 active site 927704000463 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 927704000464 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 927704000465 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 927704000466 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 927704000467 active site 927704000468 catalytic residues [active] 927704000469 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 927704000470 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 927704000471 CoA-ligase; Region: Ligase_CoA; pfam00549 927704000472 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 927704000473 CoA binding domain; Region: CoA_binding; pfam02629 927704000474 CoA-ligase; Region: Ligase_CoA; pfam00549 927704000475 Transposase domain (DUF772); Region: DUF772; pfam05598 927704000476 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 927704000477 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 927704000478 A subgroup of L-lactate dehydrogenases; Region: LDH_3; cd05290 927704000479 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 927704000480 NAD binding site [chemical binding]; other site 927704000481 dimer interface [polypeptide binding]; other site 927704000482 tetramer (dimer of dimers) interface [polypeptide binding]; other site 927704000483 substrate binding site [chemical binding]; other site 927704000484 rod shape-determining protein Mbl; Provisional; Region: PRK13928 927704000485 MreB and similar proteins; Region: MreB_like; cd10225 927704000486 nucleotide binding site [chemical binding]; other site 927704000487 Mg binding site [ion binding]; other site 927704000488 putative protofilament interaction site [polypeptide binding]; other site 927704000489 RodZ interaction site [polypeptide binding]; other site 927704000490 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 927704000491 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 927704000492 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 927704000493 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 927704000494 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 927704000495 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 927704000496 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 927704000497 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 927704000498 Flagellar L-ring protein; Region: FlgH; cl17277 927704000499 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 927704000500 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 927704000501 Rod binding protein; Region: Rod-binding; cl01626 927704000502 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 927704000503 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 927704000504 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 927704000505 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 927704000506 hinge; other site 927704000507 active site 927704000508 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 927704000509 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 927704000510 putative substrate translocation pore; other site 927704000511 POT family; Region: PTR2; cl17359 927704000512 seryl-tRNA synthetase; Provisional; Region: PRK05431 927704000513 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 927704000514 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 927704000515 dimer interface [polypeptide binding]; other site 927704000516 active site 927704000517 motif 1; other site 927704000518 motif 2; other site 927704000519 motif 3; other site 927704000520 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 927704000521 Na2 binding site [ion binding]; other site 927704000522 putative substrate binding site 1 [chemical binding]; other site 927704000523 Na binding site 1 [ion binding]; other site 927704000524 putative substrate binding site 2 [chemical binding]; other site 927704000525 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 927704000526 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 927704000527 Walker A/P-loop; other site 927704000528 ATP binding site [chemical binding]; other site 927704000529 Q-loop/lid; other site 927704000530 ABC transporter signature motif; other site 927704000531 Walker B; other site 927704000532 D-loop; other site 927704000533 H-loop/switch region; other site 927704000534 NIL domain; Region: NIL; pfam09383 927704000535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704000536 dimer interface [polypeptide binding]; other site 927704000537 conserved gate region; other site 927704000538 ABC-ATPase subunit interface; other site 927704000539 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 927704000540 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 927704000541 S-layer homology domain; Region: SLH; pfam00395 927704000542 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 927704000543 S-layer homology domain; Region: SLH; pfam00395 927704000544 S-layer homology domain; Region: SLH; pfam00395 927704000545 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 927704000546 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 927704000547 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 927704000548 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 927704000549 active site turn [active] 927704000550 phosphorylation site [posttranslational modification] 927704000551 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 927704000552 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 927704000553 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 927704000554 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 927704000555 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 927704000556 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 927704000557 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 927704000558 PYR/PP interface [polypeptide binding]; other site 927704000559 dimer interface [polypeptide binding]; other site 927704000560 TPP binding site [chemical binding]; other site 927704000561 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 927704000562 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 927704000563 TPP-binding site [chemical binding]; other site 927704000564 dimer interface [polypeptide binding]; other site 927704000565 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 927704000566 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 927704000567 putative valine binding site [chemical binding]; other site 927704000568 dimer interface [polypeptide binding]; other site 927704000569 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 927704000570 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 927704000571 Carbon starvation protein CstA; Region: CstA; pfam02554 927704000572 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 927704000573 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 927704000574 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 927704000575 active site 927704000576 motif I; other site 927704000577 motif II; other site 927704000578 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 927704000579 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 927704000580 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 927704000581 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 927704000582 putative substrate binding pocket [chemical binding]; other site 927704000583 dimer interface [polypeptide binding]; other site 927704000584 phosphate binding site [ion binding]; other site 927704000585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 927704000586 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 927704000587 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 927704000588 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 927704000589 putative active site [active] 927704000590 putative metal binding site [ion binding]; other site 927704000591 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 927704000592 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 927704000593 active site 927704000594 HIGH motif; other site 927704000595 KMSKS motif; other site 927704000596 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 927704000597 tRNA binding surface [nucleotide binding]; other site 927704000598 anticodon binding site; other site 927704000599 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 927704000600 dimer interface [polypeptide binding]; other site 927704000601 putative tRNA-binding site [nucleotide binding]; other site 927704000602 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 927704000603 active site 927704000604 Domain of unknown function (DUF348); Region: DUF348; pfam03990 927704000605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 927704000606 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 927704000607 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 927704000608 active site 927704000609 motif I; other site 927704000610 motif II; other site 927704000611 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 927704000612 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 927704000613 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 927704000614 Repair protein; Region: Repair_PSII; pfam04536 927704000615 Transcriptional regulators [Transcription]; Region: PurR; COG1609 927704000616 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 927704000617 DNA binding site [nucleotide binding] 927704000618 domain linker motif; other site 927704000619 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 927704000620 ligand binding site [chemical binding]; other site 927704000621 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 927704000622 tetramerization interface [polypeptide binding]; other site 927704000623 active site 927704000624 pantoate--beta-alanine ligase; Region: panC; TIGR00018 927704000625 Pantoate-beta-alanine ligase; Region: PanC; cd00560 927704000626 active site 927704000627 ATP-binding site [chemical binding]; other site 927704000628 pantoate-binding site; other site 927704000629 HXXH motif; other site 927704000630 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 927704000631 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 927704000632 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 927704000633 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 927704000634 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 927704000635 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 927704000636 NodB motif; other site 927704000637 active site 927704000638 metal binding site [ion binding]; metal-binding site 927704000639 PilZ domain; Region: PilZ; pfam07238 927704000640 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 927704000641 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 927704000642 active site 927704000643 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 927704000644 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 927704000645 active site 927704000646 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 927704000647 NodB motif; other site 927704000648 active site 927704000649 catalytic site [active] 927704000650 metal binding site [ion binding]; metal-binding site 927704000651 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 927704000652 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 927704000653 NodB motif; other site 927704000654 active site 927704000655 catalytic site [active] 927704000656 metal binding site [ion binding]; metal-binding site 927704000657 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 927704000658 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 927704000659 acyl-activating enzyme (AAE) consensus motif; other site 927704000660 putative AMP binding site [chemical binding]; other site 927704000661 putative active site [active] 927704000662 putative CoA binding site [chemical binding]; other site 927704000663 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 927704000664 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 927704000665 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 927704000666 dimer interface [polypeptide binding]; other site 927704000667 PYR/PP interface [polypeptide binding]; other site 927704000668 TPP binding site [chemical binding]; other site 927704000669 substrate binding site [chemical binding]; other site 927704000670 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 927704000671 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 927704000672 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 927704000673 TPP-binding site [chemical binding]; other site 927704000674 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 927704000675 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 927704000676 adenylosuccinate lyase; Provisional; Region: PRK07492 927704000677 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 927704000678 tetramer interface [polypeptide binding]; other site 927704000679 active site 927704000680 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 927704000681 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 927704000682 GDP-binding site [chemical binding]; other site 927704000683 ACT binding site; other site 927704000684 IMP binding site; other site 927704000685 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 927704000686 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 927704000687 RNA/DNA hybrid binding site [nucleotide binding]; other site 927704000688 active site 927704000689 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 927704000690 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 927704000691 Carbon starvation protein CstA; Region: CstA; pfam02554 927704000692 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 927704000693 Glucuronate isomerase; Region: UxaC; pfam02614 927704000694 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 927704000695 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 927704000696 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 927704000697 non-specific DNA binding site [nucleotide binding]; other site 927704000698 salt bridge; other site 927704000699 sequence-specific DNA binding site [nucleotide binding]; other site 927704000700 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 927704000701 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 927704000702 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 927704000703 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 927704000704 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 927704000705 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 927704000706 Cysteine-rich domain; Region: CCG; pfam02754 927704000707 Cysteine-rich domain; Region: CCG; pfam02754 927704000708 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 927704000709 active site 927704000710 P-loop; other site 927704000711 phosphorylation site [posttranslational modification] 927704000712 glycerol kinase; Provisional; Region: glpK; PRK00047 927704000713 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 927704000714 N- and C-terminal domain interface [polypeptide binding]; other site 927704000715 active site 927704000716 MgATP binding site [chemical binding]; other site 927704000717 catalytic site [active] 927704000718 metal binding site [ion binding]; metal-binding site 927704000719 glycerol binding site [chemical binding]; other site 927704000720 homotetramer interface [polypeptide binding]; other site 927704000721 homodimer interface [polypeptide binding]; other site 927704000722 FBP binding site [chemical binding]; other site 927704000723 protein IIAGlc interface [polypeptide binding]; other site 927704000724 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 927704000725 amphipathic channel; other site 927704000726 Asn-Pro-Ala signature motifs; other site 927704000727 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 927704000728 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 927704000729 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 927704000730 DctM-like transporters; Region: DctM; pfam06808 927704000731 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 927704000732 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 927704000733 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 927704000734 MarR family; Region: MarR; pfam01047 927704000735 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 927704000736 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 927704000737 HlyD family secretion protein; Region: HlyD_3; pfam13437 927704000738 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 927704000739 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 927704000740 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 927704000741 Soluble P-type ATPase [General function prediction only]; Region: COG4087 927704000742 Clostripain family; Region: Peptidase_C11; pfam03415 927704000743 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 927704000744 beta-galactosidase; Region: BGL; TIGR03356 927704000745 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 927704000746 methionine cluster; other site 927704000747 active site 927704000748 phosphorylation site [posttranslational modification] 927704000749 metal binding site [ion binding]; metal-binding site 927704000750 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 927704000751 active site 927704000752 P-loop; other site 927704000753 phosphorylation site [posttranslational modification] 927704000754 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 927704000755 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 927704000756 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 927704000757 Flavoprotein; Region: Flavoprotein; pfam02441 927704000758 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 927704000759 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 927704000760 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 927704000761 putative active site [active] 927704000762 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 927704000763 active site 927704000764 phosphorylation site [posttranslational modification] 927704000765 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 927704000766 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 927704000767 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 927704000768 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 927704000769 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 927704000770 ApbE family; Region: ApbE; pfam02424 927704000771 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 927704000772 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 927704000773 Ligand Binding Site [chemical binding]; other site 927704000774 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 927704000775 putative active site [active] 927704000776 nucleotide binding site [chemical binding]; other site 927704000777 nudix motif; other site 927704000778 putative metal binding site [ion binding]; other site 927704000779 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 927704000780 Rubredoxin [Energy production and conversion]; Region: COG1773 927704000781 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 927704000782 iron binding site [ion binding]; other site 927704000783 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 927704000784 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 927704000785 dimer interface [polypeptide binding]; other site 927704000786 active site 927704000787 metal binding site [ion binding]; metal-binding site 927704000788 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 927704000789 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 927704000790 active site 927704000791 dimer interface [polypeptide binding]; other site 927704000792 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 927704000793 dimer interface [polypeptide binding]; other site 927704000794 active site 927704000795 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 927704000796 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 927704000797 GTP binding site; other site 927704000798 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 927704000799 Walker A motif; other site 927704000800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704000801 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 927704000802 Probable transposase; Region: OrfB_IS605; pfam01385 927704000803 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704000804 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 927704000805 DNA binding residues [nucleotide binding] 927704000806 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 927704000807 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 927704000808 catalytic residues [active] 927704000809 catalytic nucleophile [active] 927704000810 YvrJ protein family; Region: YvrJ; pfam12841 927704000811 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 927704000812 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 927704000813 DNA-binding site [nucleotide binding]; DNA binding site 927704000814 haemagglutination activity domain; Region: Haemagg_act; pfam05860 927704000815 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 927704000816 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 927704000817 DNA binding residues [nucleotide binding] 927704000818 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 927704000819 catalytic residues [active] 927704000820 catalytic nucleophile [active] 927704000821 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704000822 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 927704000823 Probable transposase; Region: OrfB_IS605; pfam01385 927704000824 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704000825 flagellin; Validated; Region: PRK08026 927704000826 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 927704000827 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 927704000828 Surface antigen; Region: Bac_surface_Ag; pfam01103 927704000829 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 927704000830 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 927704000831 flagellin; Provisional; Region: PRK12807 927704000832 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 927704000833 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 927704000834 acyl-activating enzyme (AAE) consensus motif; other site 927704000835 AMP binding site [chemical binding]; other site 927704000836 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 927704000837 Condensation domain; Region: Condensation; pfam00668 927704000838 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 927704000839 putative efflux protein, MATE family; Region: matE; TIGR00797 927704000840 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 927704000841 D-galactonate transporter; Region: 2A0114; TIGR00893 927704000842 putative substrate translocation pore; other site 927704000843 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704000844 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 927704000845 Probable transposase; Region: OrfB_IS605; pfam01385 927704000846 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704000847 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704000848 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 927704000849 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704000850 Winged helix-turn helix; Region: HTH_29; pfam13551 927704000851 Integrase core domain; Region: rve; pfam00665 927704000852 Integrase core domain; Region: rve_2; pfam13333 927704000853 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 927704000854 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 927704000855 putative substrate translocation pore; other site 927704000856 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 927704000857 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 927704000858 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 927704000859 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 927704000860 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 927704000861 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 927704000862 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 927704000863 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 927704000864 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 927704000865 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 927704000866 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 927704000867 putative substrate-binding site; other site 927704000868 nickel binding site [ion binding]; other site 927704000869 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 927704000870 active site 927704000871 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 927704000872 HupF/HypC family; Region: HupF_HypC; pfam01455 927704000873 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 927704000874 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 927704000875 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 927704000876 dimerization interface [polypeptide binding]; other site 927704000877 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 927704000878 ATP binding site [chemical binding]; other site 927704000879 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 927704000880 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704000881 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 927704000882 non-specific DNA binding site [nucleotide binding]; other site 927704000883 salt bridge; other site 927704000884 sequence-specific DNA binding site [nucleotide binding]; other site 927704000885 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704000886 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 927704000887 non-specific DNA binding site [nucleotide binding]; other site 927704000888 salt bridge; other site 927704000889 sequence-specific DNA binding site [nucleotide binding]; other site 927704000890 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 927704000891 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 927704000892 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 927704000893 metal binding site 2 [ion binding]; metal-binding site 927704000894 putative DNA binding helix; other site 927704000895 metal binding site 1 [ion binding]; metal-binding site 927704000896 dimer interface [polypeptide binding]; other site 927704000897 structural Zn2+ binding site [ion binding]; other site 927704000898 6-carboxyhexanoate--CoA ligase; Provisional; Region: PRK01322 927704000899 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 927704000900 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 927704000901 substrate-cofactor binding pocket; other site 927704000902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704000903 catalytic residue [active] 927704000904 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 927704000905 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 927704000906 active site pocket [active] 927704000907 putative dimer interface [polypeptide binding]; other site 927704000908 putative cataytic base [active] 927704000909 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cl11435 927704000910 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 927704000911 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 927704000912 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 927704000913 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 927704000914 RNA binding site [nucleotide binding]; other site 927704000915 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 927704000916 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 927704000917 dimer interface [polypeptide binding]; other site 927704000918 phosphorylation site [posttranslational modification] 927704000919 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 927704000920 ATP binding site [chemical binding]; other site 927704000921 Mg2+ binding site [ion binding]; other site 927704000922 G-X-G motif; other site 927704000923 Response regulator receiver domain; Region: Response_reg; pfam00072 927704000924 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704000925 active site 927704000926 phosphorylation site [posttranslational modification] 927704000927 intermolecular recognition site; other site 927704000928 dimerization interface [polypeptide binding]; other site 927704000929 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 927704000930 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 927704000931 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 927704000932 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704000933 dimer interface [polypeptide binding]; other site 927704000934 putative CheW interface [polypeptide binding]; other site 927704000935 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 927704000936 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 927704000937 Part of AAA domain; Region: AAA_19; pfam13245 927704000938 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 927704000939 AAA domain; Region: AAA_12; pfam13087 927704000940 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 927704000941 putative active site [active] 927704000942 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 927704000943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 927704000944 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 927704000945 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 927704000946 substrate binding pocket [chemical binding]; other site 927704000947 membrane-bound complex binding site; other site 927704000948 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 927704000949 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 927704000950 DctM-like transporters; Region: DctM; pfam06808 927704000951 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 927704000952 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 927704000953 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 927704000954 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 927704000955 catalytic core [active] 927704000956 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 927704000957 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 927704000958 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 927704000959 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 927704000960 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 927704000961 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 927704000962 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 927704000963 Prephenate dehydratase; Region: PDT; pfam00800 927704000964 prephenate dehydratase; Provisional; Region: PRK11898 927704000965 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 927704000966 putative L-Phe binding site [chemical binding]; other site 927704000967 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 927704000968 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 927704000969 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 927704000970 Major Facilitator Superfamily; Region: MFS_1; pfam07690 927704000971 putative substrate translocation pore; other site 927704000972 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 927704000973 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 927704000974 Walker A motif; other site 927704000975 ATP binding site [chemical binding]; other site 927704000976 Walker B motif; other site 927704000977 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 927704000978 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 927704000979 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 927704000980 peptide chain release factor 1; Validated; Region: prfA; PRK00591 927704000981 This domain is found in peptide chain release factors; Region: PCRF; smart00937 927704000982 RF-1 domain; Region: RF-1; pfam00472 927704000983 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 927704000984 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 927704000985 S-adenosylmethionine binding site [chemical binding]; other site 927704000986 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 927704000987 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 927704000988 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 927704000989 Putative serine esterase (DUF676); Region: DUF676; pfam05057 927704000990 PGAP1-like protein; Region: PGAP1; pfam07819 927704000991 ribonuclease R; Region: RNase_R; TIGR02063 927704000992 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 927704000993 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 927704000994 RNB domain; Region: RNB; pfam00773 927704000995 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 927704000996 RNA binding site [nucleotide binding]; other site 927704000997 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 927704000998 SmpB-tmRNA interface; other site 927704000999 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 927704001000 Transposase domain (DUF772); Region: DUF772; pfam05598 927704001001 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 927704001002 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 927704001003 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 927704001004 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 927704001005 putative [4Fe-4S] binding site [ion binding]; other site 927704001006 putative molybdopterin cofactor binding site [chemical binding]; other site 927704001007 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; cd02775 927704001008 molybdopterin cofactor binding site; other site 927704001009 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 927704001010 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 927704001011 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 927704001012 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 927704001013 active site 927704001014 homodimer interface [polypeptide binding]; other site 927704001015 homotetramer interface [polypeptide binding]; other site 927704001016 FIST N domain; Region: FIST; pfam08495 927704001017 FIST C domain; Region: FIST_C; pfam10442 927704001018 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 927704001019 ATP binding site [chemical binding]; other site 927704001020 Mg2+ binding site [ion binding]; other site 927704001021 G-X-G motif; other site 927704001022 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 927704001023 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 927704001024 putative dimer interface [polypeptide binding]; other site 927704001025 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 927704001026 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 927704001027 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 927704001028 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 927704001029 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 927704001030 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 927704001031 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 927704001032 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 927704001033 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 927704001034 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 927704001035 beta subunit interaction interface [polypeptide binding]; other site 927704001036 Walker A motif; other site 927704001037 ATP binding site [chemical binding]; other site 927704001038 Walker B motif; other site 927704001039 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 927704001040 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 927704001041 core domain interface [polypeptide binding]; other site 927704001042 delta subunit interface [polypeptide binding]; other site 927704001043 epsilon subunit interface [polypeptide binding]; other site 927704001044 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 927704001045 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 927704001046 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 927704001047 alpha subunit interaction interface [polypeptide binding]; other site 927704001048 Walker A motif; other site 927704001049 ATP binding site [chemical binding]; other site 927704001050 Walker B motif; other site 927704001051 inhibitor binding site; inhibition site 927704001052 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 927704001053 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 927704001054 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 927704001055 gamma subunit interface [polypeptide binding]; other site 927704001056 epsilon subunit interface [polypeptide binding]; other site 927704001057 LBP interface [polypeptide binding]; other site 927704001058 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 927704001059 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 927704001060 Predicted membrane protein [Function unknown]; Region: COG2119 927704001061 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 927704001062 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 927704001063 hybrid cluster protein; Provisional; Region: PRK05290 927704001064 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 927704001065 ACS interaction site; other site 927704001066 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 927704001067 hybrid metal cluster; other site 927704001068 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 927704001069 Cell division protein FtsA; Region: FtsA; smart00842 927704001070 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 927704001071 nucleotide binding site [chemical binding]; other site 927704001072 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 927704001073 DAK2 domain; Region: Dak2; pfam02734 927704001074 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 927704001075 trimer interface [polypeptide binding]; other site 927704001076 Haemagglutinin; Region: HIM; pfam05662 927704001077 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 927704001078 trimer interface [polypeptide binding]; other site 927704001079 YadA-like C-terminal region; Region: YadA; pfam03895 927704001080 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 927704001081 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 927704001082 putative active site [active] 927704001083 SWIM zinc finger; Region: SWIM; pfam04434 927704001084 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 927704001085 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 927704001086 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 927704001087 ATP binding site [chemical binding]; other site 927704001088 putative Mg++ binding site [ion binding]; other site 927704001089 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 927704001090 nucleotide binding region [chemical binding]; other site 927704001091 ATP-binding site [chemical binding]; other site 927704001092 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 927704001093 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 927704001094 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 927704001095 lipoyl-biotinyl attachment site [posttranslational modification]; other site 927704001096 SLBB domain; Region: SLBB; pfam10531 927704001097 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 927704001098 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 927704001099 FMN-binding domain; Region: FMN_bind; cl01081 927704001100 electron transport complex RsxE subunit; Provisional; Region: PRK12405 927704001101 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 927704001102 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 927704001103 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 927704001104 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 927704001105 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 927704001106 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 927704001107 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 927704001108 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 927704001109 tartrate dehydrogenase; Provisional; Region: PRK08194 927704001110 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 927704001111 CoenzymeA binding site [chemical binding]; other site 927704001112 subunit interaction site [polypeptide binding]; other site 927704001113 PHB binding site; other site 927704001114 Transcriptional regulator [Transcription]; Region: LytR; COG1316 927704001115 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 927704001116 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 927704001117 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 927704001118 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 927704001119 ABC transporter; Region: ABC_tran_2; pfam12848 927704001120 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 927704001121 ABC transporter; Region: ABC_tran_2; pfam12848 927704001122 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 927704001123 AAA domain; Region: AAA_30; pfam13604 927704001124 Family description; Region: UvrD_C_2; pfam13538 927704001125 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 927704001126 S-layer homology domain; Region: SLH; pfam00395 927704001127 Rubrerythrin [Energy production and conversion]; Region: COG1592 927704001128 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 927704001129 binuclear metal center [ion binding]; other site 927704001130 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 927704001131 iron binding site [ion binding]; other site 927704001132 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 927704001133 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 927704001134 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 927704001135 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 927704001136 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 927704001137 active site 927704001138 motif I; other site 927704001139 motif II; other site 927704001140 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 927704001141 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 927704001142 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 927704001143 intersubunit interface [polypeptide binding]; other site 927704001144 active site 927704001145 Zn2+ binding site [ion binding]; other site 927704001146 flagellar operon protein TIGR03826; Region: YvyF 927704001147 Uncharacterized conserved protein [Function unknown]; Region: COG3339 927704001148 DNA topoisomerase III; Provisional; Region: PRK07726 927704001149 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 927704001150 active site 927704001151 putative interdomain interaction site [polypeptide binding]; other site 927704001152 putative metal-binding site [ion binding]; other site 927704001153 putative nucleotide binding site [chemical binding]; other site 927704001154 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 927704001155 domain I; other site 927704001156 DNA binding groove [nucleotide binding] 927704001157 phosphate binding site [ion binding]; other site 927704001158 domain II; other site 927704001159 domain III; other site 927704001160 nucleotide binding site [chemical binding]; other site 927704001161 catalytic site [active] 927704001162 domain IV; other site 927704001163 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 927704001164 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 927704001165 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 927704001166 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 927704001167 DEAD-like helicases superfamily; Region: DEXDc; smart00487 927704001168 ATP binding site [chemical binding]; other site 927704001169 putative Mg++ binding site [ion binding]; other site 927704001170 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 927704001171 nucleotide binding region [chemical binding]; other site 927704001172 ATP-binding site [chemical binding]; other site 927704001173 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 927704001174 Domain of unknown function DUF21; Region: DUF21; pfam01595 927704001175 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 927704001176 Transporter associated domain; Region: CorC_HlyC; smart01091 927704001177 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 927704001178 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 927704001179 ligand binding site [chemical binding]; other site 927704001180 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 927704001181 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 927704001182 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 927704001183 dimerization interface [polypeptide binding]; other site 927704001184 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704001185 dimer interface [polypeptide binding]; other site 927704001186 putative CheW interface [polypeptide binding]; other site 927704001187 cell division protein MraZ; Reviewed; Region: PRK00326 927704001188 MraZ protein; Region: MraZ; pfam02381 927704001189 MraZ protein; Region: MraZ; pfam02381 927704001190 MraW methylase family; Region: Methyltransf_5; pfam01795 927704001191 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 927704001192 Cell division protein FtsL; Region: FtsL; cl11433 927704001193 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 927704001194 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 927704001195 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 927704001196 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 927704001197 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 927704001198 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 927704001199 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 927704001200 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 927704001201 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 927704001202 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 927704001203 Mg++ binding site [ion binding]; other site 927704001204 putative catalytic motif [active] 927704001205 putative substrate binding site [chemical binding]; other site 927704001206 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 927704001207 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 927704001208 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 927704001209 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 927704001210 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 927704001211 active site 927704001212 homodimer interface [polypeptide binding]; other site 927704001213 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 927704001214 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 927704001215 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 927704001216 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 927704001217 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 927704001218 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 927704001219 ATP-grasp domain; Region: ATP-grasp_4; cl17255 927704001220 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 927704001221 Cell division protein FtsQ; Region: FtsQ; pfam03799 927704001222 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 927704001223 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 927704001224 PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two...; Region: PTS_IIB_lactose; cd05565 927704001225 active site 927704001226 P-loop; other site 927704001227 phosphorylation site [posttranslational modification] 927704001228 S-layer homology domain; Region: SLH; pfam00395 927704001229 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; pfam07745 927704001230 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 927704001231 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 927704001232 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 927704001233 intersubunit interface [polypeptide binding]; other site 927704001234 active site 927704001235 zinc binding site [ion binding]; other site 927704001236 Na+ binding site [ion binding]; other site 927704001237 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 927704001238 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 927704001239 putative substrate binding site [chemical binding]; other site 927704001240 putative ATP binding site [chemical binding]; other site 927704001241 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 927704001242 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 927704001243 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 927704001244 putative active site [active] 927704001245 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 927704001246 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 927704001247 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 927704001248 methionine cluster; other site 927704001249 active site 927704001250 phosphorylation site [posttranslational modification] 927704001251 metal binding site [ion binding]; metal-binding site 927704001252 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 927704001253 beta-galactosidase; Region: BGL; TIGR03356 927704001254 cell division protein FtsZ; Validated; Region: PRK09330 927704001255 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 927704001256 nucleotide binding site [chemical binding]; other site 927704001257 SulA interaction site; other site 927704001258 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 927704001259 amidase catalytic site [active] 927704001260 Zn binding residues [ion binding]; other site 927704001261 substrate binding site [chemical binding]; other site 927704001262 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 927704001263 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 927704001264 ligand binding site; other site 927704001265 oligomer interface; other site 927704001266 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 927704001267 dimer interface [polypeptide binding]; other site 927704001268 N-terminal domain interface [polypeptide binding]; other site 927704001269 sulfate 1 binding site; other site 927704001270 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 927704001271 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 927704001272 ligand binding site; other site 927704001273 oligomer interface; other site 927704001274 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 927704001275 dimer interface [polypeptide binding]; other site 927704001276 N-terminal domain interface [polypeptide binding]; other site 927704001277 sulfate 1 binding site; other site 927704001278 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 927704001279 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 927704001280 active site pocket [active] 927704001281 glycogen branching enzyme; Provisional; Region: PRK12313 927704001282 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 927704001283 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 927704001284 active site 927704001285 catalytic site [active] 927704001286 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 927704001287 glycogen synthase; Provisional; Region: glgA; PRK00654 927704001288 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 927704001289 ADP-binding pocket [chemical binding]; other site 927704001290 homodimer interface [polypeptide binding]; other site 927704001291 putative bifunctional 4-alpha-glucanotransferase/glycogen debranching enzyme; Provisional; Region: PRK14510 927704001292 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 927704001293 homodimer interface [polypeptide binding]; other site 927704001294 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 927704001295 active site 927704001296 homodimer interface [polypeptide binding]; other site 927704001297 catalytic site [active] 927704001298 4-alpha-glucanotransferase; Provisional; Region: PRK14508 927704001299 GMP synthase; Reviewed; Region: guaA; PRK00074 927704001300 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 927704001301 AMP/PPi binding site [chemical binding]; other site 927704001302 candidate oxyanion hole; other site 927704001303 catalytic triad [active] 927704001304 potential glutamine specificity residues [chemical binding]; other site 927704001305 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 927704001306 ATP Binding subdomain [chemical binding]; other site 927704001307 Ligand Binding sites [chemical binding]; other site 927704001308 Dimerization subdomain; other site 927704001309 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 927704001310 non-specific DNA binding site [nucleotide binding]; other site 927704001311 salt bridge; other site 927704001312 sequence-specific DNA binding site [nucleotide binding]; other site 927704001313 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 927704001314 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 927704001315 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 927704001316 Int/Topo IB signature motif; other site 927704001317 AAA domain; Region: AAA_25; pfam13481 927704001318 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 927704001319 Walker A motif; other site 927704001320 ATP binding site [chemical binding]; other site 927704001321 Walker B motif; other site 927704001322 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 927704001323 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 927704001324 putative DNA binding site [nucleotide binding]; other site 927704001325 dimerization interface [polypeptide binding]; other site 927704001326 putative Zn2+ binding site [ion binding]; other site 927704001327 Predicted permeases [General function prediction only]; Region: COG0701 927704001328 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 927704001329 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 927704001330 Sodium Bile acid symporter family; Region: SBF; cl17470 927704001331 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 927704001332 Low molecular weight phosphatase family; Region: LMWPc; cd00115 927704001333 active site 927704001334 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 927704001335 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 927704001336 Walker A motif; other site 927704001337 ATP binding site [chemical binding]; other site 927704001338 Walker B motif; other site 927704001339 arginine finger; other site 927704001340 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 927704001341 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 927704001342 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 927704001343 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 927704001344 putative active site [active] 927704001345 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 927704001346 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 927704001347 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 927704001348 active site 927704001349 P-loop; other site 927704001350 phosphorylation site [posttranslational modification] 927704001351 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 927704001352 methionine cluster; other site 927704001353 active site 927704001354 phosphorylation site [posttranslational modification] 927704001355 metal binding site [ion binding]; metal-binding site 927704001356 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 927704001357 beta-galactosidase; Region: BGL; TIGR03356 927704001358 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 927704001359 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 927704001360 active site 927704001361 active site 927704001362 catalytic residues [active] 927704001363 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 927704001364 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 927704001365 Autotransporter beta-domain; Region: Autotransporter; smart00869 927704001366 Cache domain; Region: Cache_1; pfam02743 927704001367 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 927704001368 dimerization interface [polypeptide binding]; other site 927704001369 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704001370 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704001371 dimer interface [polypeptide binding]; other site 927704001372 putative CheW interface [polypeptide binding]; other site 927704001373 Autotransporter beta-domain; Region: Autotransporter; cl17461 927704001374 hypothetical protein; Validated; Region: PRK00153 927704001375 recombination protein RecR; Reviewed; Region: recR; PRK00076 927704001376 RecR protein; Region: RecR; pfam02132 927704001377 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 927704001378 putative active site [active] 927704001379 putative metal-binding site [ion binding]; other site 927704001380 tetramer interface [polypeptide binding]; other site 927704001381 LPP20 lipoprotein; Region: LPP20; pfam02169 927704001382 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 927704001383 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 927704001384 FeS/SAM binding site; other site 927704001385 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 927704001386 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 927704001387 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 927704001388 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 927704001389 S-adenosylmethionine binding site [chemical binding]; other site 927704001390 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 927704001391 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 927704001392 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 927704001393 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 927704001394 AAA domain; Region: AAA_21; pfam13304 927704001395 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 927704001396 active site 927704001397 metal binding site [ion binding]; metal-binding site 927704001398 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 927704001399 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 927704001400 nucleotide binding site [chemical binding]; other site 927704001401 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 927704001402 4Fe-4S binding domain; Region: Fer4_6; pfam12837 927704001403 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 927704001404 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 927704001405 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 927704001406 putative MPT binding site; other site 927704001407 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 927704001408 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 927704001409 dimer interface [polypeptide binding]; other site 927704001410 putative functional site; other site 927704001411 putative MPT binding site; other site 927704001412 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 927704001413 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 927704001414 FeS/SAM binding site; other site 927704001415 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 927704001416 MOSC domain; Region: MOSC; pfam03473 927704001417 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 927704001418 MPT binding site; other site 927704001419 trimer interface [polypeptide binding]; other site 927704001420 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 927704001421 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 927704001422 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 927704001423 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 927704001424 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 927704001425 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 927704001426 catalytic residues [active] 927704001427 catalytic nucleophile [active] 927704001428 Presynaptic Site I dimer interface [polypeptide binding]; other site 927704001429 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 927704001430 Synaptic Flat tetramer interface [polypeptide binding]; other site 927704001431 Synaptic Site I dimer interface [polypeptide binding]; other site 927704001432 DNA binding site [nucleotide binding] 927704001433 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 927704001434 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 927704001435 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 927704001436 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 927704001437 TPR repeat; Region: TPR_11; pfam13414 927704001438 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 927704001439 TPR motif; other site 927704001440 TPR repeat; Region: TPR_11; pfam13414 927704001441 binding surface 927704001442 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 927704001443 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 927704001444 Walker A motif; other site 927704001445 ATP binding site [chemical binding]; other site 927704001446 Walker B motif; other site 927704001447 arginine finger; other site 927704001448 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 927704001449 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 927704001450 S-adenosylmethionine binding site [chemical binding]; other site 927704001451 cell division protein FtsW; Region: ftsW; TIGR02614 927704001452 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 927704001453 Sensor protein DegS; Region: DegS; pfam05384 927704001454 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 927704001455 Histidine kinase; Region: HisKA_3; pfam07730 927704001456 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 927704001457 ATP binding site [chemical binding]; other site 927704001458 Mg2+ binding site [ion binding]; other site 927704001459 G-X-G motif; other site 927704001460 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 927704001461 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 927704001462 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 927704001463 catalytic residue [active] 927704001464 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 927704001465 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 927704001466 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 927704001467 TMP-binding site; other site 927704001468 ATP-binding site [chemical binding]; other site 927704001469 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 927704001470 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 927704001471 putative active site [active] 927704001472 putative metal binding site [ion binding]; other site 927704001473 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 927704001474 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 927704001475 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 927704001476 S-adenosylmethionine binding site [chemical binding]; other site 927704001477 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 927704001478 glutamate racemase; Provisional; Region: PRK00865 927704001479 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 927704001480 active site 927704001481 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 927704001482 ribonuclease PH; Reviewed; Region: rph; PRK00173 927704001483 Ribonuclease PH; Region: RNase_PH_bact; cd11362 927704001484 hexamer interface [polypeptide binding]; other site 927704001485 active site 927704001486 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 927704001487 active site 927704001488 dimerization interface [polypeptide binding]; other site 927704001489 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 927704001490 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 927704001491 active site 927704001492 metal binding site [ion binding]; metal-binding site 927704001493 homotetramer interface [polypeptide binding]; other site 927704001494 fumarate hydratase; Provisional; Region: PRK06246 927704001495 Fumarase C-terminus; Region: Fumerase_C; cl00795 927704001496 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 927704001497 putative Iron-sulfur protein interface [polypeptide binding]; other site 927704001498 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 927704001499 proximal heme binding site [chemical binding]; other site 927704001500 distal heme binding site [chemical binding]; other site 927704001501 putative dimer interface [polypeptide binding]; other site 927704001502 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 927704001503 L-aspartate oxidase; Provisional; Region: PRK06175 927704001504 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 927704001505 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 927704001506 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 927704001507 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 927704001508 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 927704001509 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 927704001510 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 927704001511 PAS domain; Region: PAS_9; pfam13426 927704001512 putative active site [active] 927704001513 heme pocket [chemical binding]; other site 927704001514 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704001515 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704001516 metal binding site [ion binding]; metal-binding site 927704001517 active site 927704001518 I-site; other site 927704001519 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 927704001520 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 927704001521 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 927704001522 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 927704001523 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 927704001524 DNA binding residues [nucleotide binding] 927704001525 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 927704001526 catalytic residues [active] 927704001527 catalytic nucleophile [active] 927704001528 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704001529 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 927704001530 Probable transposase; Region: OrfB_IS605; pfam01385 927704001531 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704001532 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 927704001533 ATP binding site [chemical binding]; other site 927704001534 substrate binding site [chemical binding]; other site 927704001535 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 927704001536 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 927704001537 FeS/SAM binding site; other site 927704001538 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 927704001539 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 927704001540 lipoyl-biotinyl attachment site [posttranslational modification]; other site 927704001541 comF family protein; Region: comF; TIGR00201 927704001542 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 927704001543 active site 927704001544 DNA protecting protein DprA; Region: dprA; TIGR00732 927704001545 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 927704001546 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 927704001547 DNA topoisomerase I; Validated; Region: PRK05582 927704001548 active site 927704001549 interdomain interaction site; other site 927704001550 putative metal-binding site [ion binding]; other site 927704001551 nucleotide binding site [chemical binding]; other site 927704001552 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 927704001553 domain I; other site 927704001554 DNA binding groove [nucleotide binding] 927704001555 phosphate binding site [ion binding]; other site 927704001556 domain II; other site 927704001557 domain III; other site 927704001558 nucleotide binding site [chemical binding]; other site 927704001559 catalytic site [active] 927704001560 domain IV; other site 927704001561 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 927704001562 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 927704001563 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 927704001564 Glucose inhibited division protein A; Region: GIDA; pfam01134 927704001565 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 927704001566 active site 927704001567 HslU subunit interaction site [polypeptide binding]; other site 927704001568 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 927704001569 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 927704001570 Walker A motif; other site 927704001571 ATP binding site [chemical binding]; other site 927704001572 Walker B motif; other site 927704001573 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 927704001574 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 927704001575 transcriptional repressor CodY; Validated; Region: PRK04158 927704001576 CodY GAF-like domain; Region: CodY; pfam06018 927704001577 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 927704001578 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 927704001579 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 927704001580 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 927704001581 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 927704001582 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 927704001583 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 927704001584 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 927704001585 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 927704001586 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 927704001587 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 927704001588 FliG C-terminal domain; Region: FliG_C; pfam01706 927704001589 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 927704001590 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 927704001591 Flagellar assembly protein FliH; Region: FliH; pfam02108 927704001592 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 927704001593 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 927704001594 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 927704001595 Walker A motif/ATP binding site; other site 927704001596 Walker B motif; other site 927704001597 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 927704001598 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 927704001599 N-acetyl-D-glucosamine binding site [chemical binding]; other site 927704001600 catalytic residue [active] 927704001601 Uncharacterized conserved protein [Function unknown]; Region: COG3334 927704001602 AMIN domain; Region: AMIN; pfam11741 927704001603 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 927704001604 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 927704001605 active site 927704001606 metal binding site [ion binding]; metal-binding site 927704001607 SEC-C motif; Region: SEC-C; pfam02810 927704001608 multidrug efflux protein; Reviewed; Region: PRK01766 927704001609 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 927704001610 cation binding site [ion binding]; other site 927704001611 Flagellar protein (FlbD); Region: FlbD; pfam06289 927704001612 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 927704001613 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 927704001614 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 927704001615 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 927704001616 CheC-like family; Region: CheC; pfam04509 927704001617 CheC-like family; Region: CheC; pfam04509 927704001618 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 927704001619 Response regulator receiver domain; Region: Response_reg; pfam00072 927704001620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704001621 active site 927704001622 phosphorylation site [posttranslational modification] 927704001623 intermolecular recognition site; other site 927704001624 dimerization interface [polypeptide binding]; other site 927704001625 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 927704001626 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 927704001627 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 927704001628 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 927704001629 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 927704001630 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 927704001631 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 927704001632 FHIPEP family; Region: FHIPEP; pfam00771 927704001633 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 927704001634 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 927704001635 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 927704001636 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 927704001637 P-loop; other site 927704001638 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 927704001639 Flagellar protein YcgR; Region: YcgR_2; pfam12945 927704001640 PilZ domain; Region: PilZ; pfam07238 927704001641 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 927704001642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704001643 active site 927704001644 phosphorylation site [posttranslational modification] 927704001645 intermolecular recognition site; other site 927704001646 CheB methylesterase; Region: CheB_methylest; pfam01339 927704001647 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 927704001648 putative binding surface; other site 927704001649 active site 927704001650 P2 response regulator binding domain; Region: P2; pfam07194 927704001651 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 927704001652 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 927704001653 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 927704001654 ATP binding site [chemical binding]; other site 927704001655 Mg2+ binding site [ion binding]; other site 927704001656 G-X-G motif; other site 927704001657 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 927704001658 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 927704001659 putative CheA interaction surface; other site 927704001660 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 927704001661 CheC-like family; Region: CheC; pfam04509 927704001662 CheC-like family; Region: CheC; pfam04509 927704001663 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 927704001664 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 927704001665 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 927704001666 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 927704001667 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 927704001668 DNA binding residues [nucleotide binding] 927704001669 Protein of unknown function (DUF342); Region: DUF342; pfam03961 927704001670 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 927704001671 Uncharacterized protein family (UPF0242); Region: UPF0242; pfam06785 927704001672 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 927704001673 dimer interface [polypeptide binding]; other site 927704001674 motif 1; other site 927704001675 active site 927704001676 motif 2; other site 927704001677 motif 3; other site 927704001678 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 927704001679 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 927704001680 DALR anticodon binding domain; Region: DALR_1; pfam05746 927704001681 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 927704001682 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 927704001683 catalytic residues [active] 927704001684 catalytic nucleophile [active] 927704001685 Presynaptic Site I dimer interface [polypeptide binding]; other site 927704001686 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 927704001687 Synaptic Flat tetramer interface [polypeptide binding]; other site 927704001688 Synaptic Site I dimer interface [polypeptide binding]; other site 927704001689 DNA binding site [nucleotide binding] 927704001690 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 927704001691 Chain length determinant protein; Region: Wzz; pfam02706 927704001692 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 927704001693 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 927704001694 Bacterial sugar transferase; Region: Bac_transf; pfam02397 927704001695 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 927704001696 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 927704001697 active site 927704001698 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 927704001699 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 927704001700 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 927704001701 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 927704001702 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 927704001703 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 927704001704 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 927704001705 dimer interface [polypeptide binding]; other site 927704001706 active site 927704001707 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 927704001708 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 927704001709 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 927704001710 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 927704001711 active site 927704001712 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 927704001713 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 927704001714 NAD binding site [chemical binding]; other site 927704001715 homotetramer interface [polypeptide binding]; other site 927704001716 homodimer interface [polypeptide binding]; other site 927704001717 substrate binding site [chemical binding]; other site 927704001718 active site 927704001719 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 927704001720 salt bridge; other site 927704001721 non-specific DNA binding site [nucleotide binding]; other site 927704001722 sequence-specific DNA binding site [nucleotide binding]; other site 927704001723 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 927704001724 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 927704001725 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 927704001726 inhibitor-cofactor binding pocket; inhibition site 927704001727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704001728 catalytic residue [active] 927704001729 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 927704001730 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 927704001731 NAD(P) binding site [chemical binding]; other site 927704001732 active site 927704001733 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 927704001734 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 927704001735 active site 927704001736 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 927704001737 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 927704001738 active site 927704001739 Substrate binding site; other site 927704001740 Mg++ binding site; other site 927704001741 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 927704001742 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 927704001743 active site 927704001744 motif I; other site 927704001745 motif II; other site 927704001746 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 927704001747 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 927704001748 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 927704001749 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 927704001750 Transposase, Mutator family; Region: Transposase_mut; pfam00872 927704001751 MULE transposase domain; Region: MULE; pfam10551 927704001752 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 927704001753 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 927704001754 UDP-glucose 4-epimerase; Region: PLN02240 927704001755 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 927704001756 NAD binding site [chemical binding]; other site 927704001757 homodimer interface [polypeptide binding]; other site 927704001758 active site 927704001759 substrate binding site [chemical binding]; other site 927704001760 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 927704001761 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 927704001762 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 927704001763 putative nucleotide binding site [chemical binding]; other site 927704001764 uridine monophosphate binding site [chemical binding]; other site 927704001765 homohexameric interface [polypeptide binding]; other site 927704001766 ribosome recycling factor; Reviewed; Region: frr; PRK00083 927704001767 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 927704001768 hinge region; other site 927704001769 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 927704001770 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 927704001771 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 927704001772 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 927704001773 catalytic residue [active] 927704001774 putative FPP diphosphate binding site; other site 927704001775 putative FPP binding hydrophobic cleft; other site 927704001776 dimer interface [polypeptide binding]; other site 927704001777 putative IPP diphosphate binding site; other site 927704001778 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 927704001779 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 927704001780 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 927704001781 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 927704001782 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 927704001783 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 927704001784 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 927704001785 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 927704001786 active site 927704001787 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 927704001788 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 927704001789 putative substrate binding region [chemical binding]; other site 927704001790 putative substrate binding region [chemical binding]; other site 927704001791 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 927704001792 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 927704001793 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 927704001794 prolyl-tRNA synthetase; Provisional; Region: PRK09194 927704001795 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 927704001796 dimer interface [polypeptide binding]; other site 927704001797 motif 1; other site 927704001798 active site 927704001799 motif 2; other site 927704001800 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 927704001801 putative deacylase active site [active] 927704001802 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 927704001803 active site 927704001804 motif 3; other site 927704001805 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 927704001806 anticodon binding site; other site 927704001807 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 927704001808 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 927704001809 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 927704001810 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 927704001811 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704001812 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704001813 dimer interface [polypeptide binding]; other site 927704001814 putative CheW interface [polypeptide binding]; other site 927704001815 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 927704001816 thiS-thiF/thiG interaction site; other site 927704001817 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 927704001818 ThiS interaction site; other site 927704001819 putative active site [active] 927704001820 tetramer interface [polypeptide binding]; other site 927704001821 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 927704001822 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 927704001823 FeS/SAM binding site; other site 927704001824 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 927704001825 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 927704001826 thiamine phosphate binding site [chemical binding]; other site 927704001827 active site 927704001828 pyrophosphate binding site [ion binding]; other site 927704001829 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 927704001830 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 927704001831 ATP binding site [chemical binding]; other site 927704001832 substrate interface [chemical binding]; other site 927704001833 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 927704001834 serine O-acetyltransferase; Region: cysE; TIGR01172 927704001835 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 927704001836 trimer interface [polypeptide binding]; other site 927704001837 active site 927704001838 substrate binding site [chemical binding]; other site 927704001839 CoA binding site [chemical binding]; other site 927704001840 DAK2 domain; Region: Dak2; cl03685 927704001841 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 927704001842 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 927704001843 active site 927704001844 HIGH motif; other site 927704001845 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 927704001846 active site 927704001847 KMSKS motif; other site 927704001848 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 927704001849 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 927704001850 S-adenosylmethionine binding site [chemical binding]; other site 927704001851 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 927704001852 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 927704001853 active site 927704001854 (T/H)XGH motif; other site 927704001855 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 927704001856 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 927704001857 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 927704001858 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 927704001859 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 927704001860 dimerization interface [polypeptide binding]; other site 927704001861 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704001862 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704001863 dimer interface [polypeptide binding]; other site 927704001864 putative CheW interface [polypeptide binding]; other site 927704001865 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 927704001866 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 927704001867 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 927704001868 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 927704001869 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 927704001870 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 927704001871 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 927704001872 GTP-binding protein LepA; Provisional; Region: PRK05433 927704001873 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 927704001874 G1 box; other site 927704001875 putative GEF interaction site [polypeptide binding]; other site 927704001876 GTP/Mg2+ binding site [chemical binding]; other site 927704001877 Switch I region; other site 927704001878 G2 box; other site 927704001879 G3 box; other site 927704001880 Switch II region; other site 927704001881 G4 box; other site 927704001882 G5 box; other site 927704001883 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 927704001884 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 927704001885 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 927704001886 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 927704001887 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 927704001888 FeS/SAM binding site; other site 927704001889 HemN C-terminal domain; Region: HemN_C; pfam06969 927704001890 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 927704001891 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 927704001892 NodB motif; other site 927704001893 active site 927704001894 catalytic site [active] 927704001895 Zn binding site [ion binding]; other site 927704001896 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 927704001897 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 927704001898 Domain of unknown function DUF20; Region: UPF0118; pfam01594 927704001899 Peptidase family M48; Region: Peptidase_M48; cl12018 927704001900 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 927704001901 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 927704001902 active site 927704001903 phosphodiesterase; Provisional; Region: PRK12704 927704001904 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 927704001905 Zn2+ binding site [ion binding]; other site 927704001906 Mg2+ binding site [ion binding]; other site 927704001907 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 927704001908 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 927704001909 putative active site [active] 927704001910 metal binding site [ion binding]; metal-binding site 927704001911 homodimer binding site [polypeptide binding]; other site 927704001912 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 927704001913 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 927704001914 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 927704001915 active site 927704001916 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 927704001917 Asp23 family; Region: Asp23; pfam03780 927704001918 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 927704001919 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704001920 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704001921 metal binding site [ion binding]; metal-binding site 927704001922 active site 927704001923 I-site; other site 927704001924 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 927704001925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704001926 Walker A/P-loop; other site 927704001927 ATP binding site [chemical binding]; other site 927704001928 Q-loop/lid; other site 927704001929 ABC transporter signature motif; other site 927704001930 Walker B; other site 927704001931 D-loop; other site 927704001932 H-loop/switch region; other site 927704001933 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 927704001934 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 927704001935 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 927704001936 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 927704001937 Peptidase family M23; Region: Peptidase_M23; pfam01551 927704001938 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 927704001939 C-terminal peptidase (prc); Region: prc; TIGR00225 927704001940 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 927704001941 protein binding site [polypeptide binding]; other site 927704001942 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 927704001943 Catalytic dyad [active] 927704001944 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 927704001945 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 927704001946 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 927704001947 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 927704001948 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 927704001949 Sulfatase; Region: Sulfatase; cl17466 927704001950 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 927704001951 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 927704001952 FeS/SAM binding site; other site 927704001953 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 927704001954 active site 927704001955 NTP binding site [chemical binding]; other site 927704001956 metal binding triad [ion binding]; metal-binding site 927704001957 antibiotic binding site [chemical binding]; other site 927704001958 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 927704001959 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 927704001960 Protein of unknown function DUF45; Region: DUF45; pfam01863 927704001961 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 927704001962 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 927704001963 S-adenosylmethionine binding site [chemical binding]; other site 927704001964 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 927704001965 RNA methyltransferase, RsmE family; Region: TIGR00046 927704001966 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 927704001967 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 927704001968 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 927704001969 FeS/SAM binding site; other site 927704001970 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 927704001971 MarR family; Region: MarR; pfam01047 927704001972 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 927704001973 Sulfatase; Region: Sulfatase; pfam00884 927704001974 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 927704001975 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 927704001976 methionine aminopeptidase; Provisional; Region: PRK12318 927704001977 SEC-C motif; Region: SEC-C; pfam02810 927704001978 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 927704001979 active site 927704001980 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 927704001981 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 927704001982 ATP binding site [chemical binding]; other site 927704001983 Mg++ binding site [ion binding]; other site 927704001984 motif III; other site 927704001985 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 927704001986 nucleotide binding region [chemical binding]; other site 927704001987 ATP-binding site [chemical binding]; other site 927704001988 6-phosphofructokinase [Carbohydrate transport and metabolism]; Region: PfkA; COG0205 927704001989 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 927704001990 active site 927704001991 ADP/pyrophosphate binding site [chemical binding]; other site 927704001992 dimerization interface [polypeptide binding]; other site 927704001993 allosteric effector site; other site 927704001994 fructose-1,6-bisphosphate binding site; other site 927704001995 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 927704001996 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 927704001997 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 927704001998 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 927704001999 putative homodimer interface [polypeptide binding]; other site 927704002000 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 927704002001 heterodimer interface [polypeptide binding]; other site 927704002002 homodimer interface [polypeptide binding]; other site 927704002003 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 927704002004 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 927704002005 23S rRNA interface [nucleotide binding]; other site 927704002006 L7/L12 interface [polypeptide binding]; other site 927704002007 putative thiostrepton binding site; other site 927704002008 L25 interface [polypeptide binding]; other site 927704002009 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 927704002010 mRNA/rRNA interface [nucleotide binding]; other site 927704002011 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 927704002012 23S rRNA interface [nucleotide binding]; other site 927704002013 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 927704002014 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 927704002015 core dimer interface [polypeptide binding]; other site 927704002016 peripheral dimer interface [polypeptide binding]; other site 927704002017 L10 interface [polypeptide binding]; other site 927704002018 L11 interface [polypeptide binding]; other site 927704002019 putative EF-Tu interaction site [polypeptide binding]; other site 927704002020 putative EF-G interaction site [polypeptide binding]; other site 927704002021 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 927704002022 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 927704002023 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 927704002024 homotrimer interaction site [polypeptide binding]; other site 927704002025 putative active site [active] 927704002026 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 927704002027 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 927704002028 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 927704002029 heat shock protein 90; Provisional; Region: PRK05218 927704002030 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 927704002031 ATP binding site [chemical binding]; other site 927704002032 Mg2+ binding site [ion binding]; other site 927704002033 G-X-G motif; other site 927704002034 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 927704002035 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 927704002036 glutaminase active site [active] 927704002037 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 927704002038 dimer interface [polypeptide binding]; other site 927704002039 active site 927704002040 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 927704002041 dimer interface [polypeptide binding]; other site 927704002042 active site 927704002043 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 927704002044 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 927704002045 S17 interaction site [polypeptide binding]; other site 927704002046 S8 interaction site; other site 927704002047 16S rRNA interaction site [nucleotide binding]; other site 927704002048 streptomycin interaction site [chemical binding]; other site 927704002049 23S rRNA interaction site [nucleotide binding]; other site 927704002050 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 927704002051 30S ribosomal protein S7; Validated; Region: PRK05302 927704002052 elongation factor G; Reviewed; Region: PRK00007 927704002053 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 927704002054 G1 box; other site 927704002055 putative GEF interaction site [polypeptide binding]; other site 927704002056 GTP/Mg2+ binding site [chemical binding]; other site 927704002057 Switch I region; other site 927704002058 G2 box; other site 927704002059 G3 box; other site 927704002060 Switch II region; other site 927704002061 G4 box; other site 927704002062 G5 box; other site 927704002063 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 927704002064 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 927704002065 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 927704002066 elongation factor Tu; Reviewed; Region: PRK00049 927704002067 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 927704002068 G1 box; other site 927704002069 GEF interaction site [polypeptide binding]; other site 927704002070 GTP/Mg2+ binding site [chemical binding]; other site 927704002071 Switch I region; other site 927704002072 G2 box; other site 927704002073 G3 box; other site 927704002074 Switch II region; other site 927704002075 G4 box; other site 927704002076 G5 box; other site 927704002077 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 927704002078 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 927704002079 Antibiotic Binding Site [chemical binding]; other site 927704002080 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 927704002081 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 927704002082 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 927704002083 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 927704002084 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 927704002085 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 927704002086 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 927704002087 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 927704002088 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 927704002089 putative translocon binding site; other site 927704002090 protein-rRNA interface [nucleotide binding]; other site 927704002091 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 927704002092 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 927704002093 G-X-X-G motif; other site 927704002094 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 927704002095 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 927704002096 23S rRNA interface [nucleotide binding]; other site 927704002097 5S rRNA interface [nucleotide binding]; other site 927704002098 putative antibiotic binding site [chemical binding]; other site 927704002099 L25 interface [polypeptide binding]; other site 927704002100 L27 interface [polypeptide binding]; other site 927704002101 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 927704002102 23S rRNA interface [nucleotide binding]; other site 927704002103 putative translocon interaction site; other site 927704002104 signal recognition particle (SRP54) interaction site; other site 927704002105 L23 interface [polypeptide binding]; other site 927704002106 trigger factor interaction site; other site 927704002107 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 927704002108 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 927704002109 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 927704002110 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 927704002111 RNA binding site [nucleotide binding]; other site 927704002112 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 927704002113 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 927704002114 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 927704002115 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 927704002116 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 927704002117 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 927704002118 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 927704002119 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 927704002120 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 927704002121 5S rRNA interface [nucleotide binding]; other site 927704002122 L27 interface [polypeptide binding]; other site 927704002123 23S rRNA interface [nucleotide binding]; other site 927704002124 L5 interface [polypeptide binding]; other site 927704002125 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 927704002126 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 927704002127 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 927704002128 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 927704002129 23S rRNA binding site [nucleotide binding]; other site 927704002130 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 927704002131 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 927704002132 SecY translocase; Region: SecY; pfam00344 927704002133 adenylate kinase; Reviewed; Region: adk; PRK00279 927704002134 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 927704002135 AMP-binding site [chemical binding]; other site 927704002136 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 927704002137 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 927704002138 rRNA binding site [nucleotide binding]; other site 927704002139 predicted 30S ribosome binding site; other site 927704002140 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 927704002141 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 927704002142 30S ribosomal protein S13; Region: bact_S13; TIGR03631 927704002143 30S ribosomal protein S11; Validated; Region: PRK05309 927704002144 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 927704002145 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 927704002146 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 927704002147 RNA binding surface [nucleotide binding]; other site 927704002148 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 927704002149 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 927704002150 alphaNTD homodimer interface [polypeptide binding]; other site 927704002151 alphaNTD - beta interaction site [polypeptide binding]; other site 927704002152 alphaNTD - beta' interaction site [polypeptide binding]; other site 927704002153 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 927704002154 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 927704002155 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 927704002156 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 927704002157 putative active site [active] 927704002158 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 927704002159 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 927704002160 non-heme iron binding site [ion binding]; other site 927704002161 Desulfoferrodoxin [Energy production and conversion]; Region: COG2033 927704002162 dimer interface [polypeptide binding]; other site 927704002163 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 927704002164 non-heme iron binding site [ion binding]; other site 927704002165 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 927704002166 amidase catalytic site [active] 927704002167 Zn binding residues [ion binding]; other site 927704002168 substrate binding site [chemical binding]; other site 927704002169 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 927704002170 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 927704002171 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704002172 Walker A/P-loop; other site 927704002173 ATP binding site [chemical binding]; other site 927704002174 Q-loop/lid; other site 927704002175 ABC transporter signature motif; other site 927704002176 Walker B; other site 927704002177 D-loop; other site 927704002178 H-loop/switch region; other site 927704002179 ABC-2 type transporter; Region: ABC2_membrane; cl17235 927704002180 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 927704002181 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704002182 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 927704002183 Walker A/P-loop; other site 927704002184 ATP binding site [chemical binding]; other site 927704002185 Q-loop/lid; other site 927704002186 ABC transporter signature motif; other site 927704002187 Walker B; other site 927704002188 D-loop; other site 927704002189 H-loop/switch region; other site 927704002190 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 927704002191 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 927704002192 ABC-ATPase subunit interface; other site 927704002193 dimer interface [polypeptide binding]; other site 927704002194 putative PBP binding regions; other site 927704002195 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 927704002196 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 927704002197 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH_2; cd04602 927704002198 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 927704002199 active site 927704002200 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 927704002201 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 927704002202 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 927704002203 active site 2 [active] 927704002204 active site 1 [active] 927704002205 putative phosphate acyltransferase; Provisional; Region: PRK05331 927704002206 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 927704002207 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 927704002208 FMN binding site [chemical binding]; other site 927704002209 substrate binding site [chemical binding]; other site 927704002210 putative catalytic residue [active] 927704002211 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 927704002212 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 927704002213 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 927704002214 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 927704002215 NAD(P) binding site [chemical binding]; other site 927704002216 homotetramer interface [polypeptide binding]; other site 927704002217 homodimer interface [polypeptide binding]; other site 927704002218 active site 927704002219 acyl carrier protein; Provisional; Region: acpP; PRK00982 927704002220 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 927704002221 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 927704002222 FMN binding site [chemical binding]; other site 927704002223 substrate binding site [chemical binding]; other site 927704002224 putative catalytic residue [active] 927704002225 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 927704002226 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 927704002227 dimer interface [polypeptide binding]; other site 927704002228 active site 927704002229 ribonuclease III; Reviewed; Region: rnc; PRK00102 927704002230 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 927704002231 dimerization interface [polypeptide binding]; other site 927704002232 active site 927704002233 metal binding site [ion binding]; metal-binding site 927704002234 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 927704002235 dsRNA binding site [nucleotide binding]; other site 927704002236 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 927704002237 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 927704002238 MarR family; Region: MarR_2; pfam12802 927704002239 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 927704002240 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 927704002241 HlyD family secretion protein; Region: HlyD_3; pfam13437 927704002242 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 927704002243 Protein export membrane protein; Region: SecD_SecF; cl14618 927704002244 2-isopropylmalate synthase; Validated; Region: PRK03739 927704002245 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 927704002246 active site 927704002247 catalytic residues [active] 927704002248 metal binding site [ion binding]; metal-binding site 927704002249 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 927704002250 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 927704002251 Serine hydrolase (FSH1); Region: FSH1; pfam03959 927704002252 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 927704002253 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 927704002254 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 927704002255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 927704002256 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 927704002257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 927704002258 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 927704002259 ArsC family; Region: ArsC; pfam03960 927704002260 putative ArsC-like catalytic residues; other site 927704002261 putative TRX-like catalytic residues [active] 927704002262 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 927704002263 ATP binding site [chemical binding]; other site 927704002264 active site 927704002265 substrate binding site [chemical binding]; other site 927704002266 AIR carboxylase; Region: AIRC; pfam00731 927704002267 amidophosphoribosyltransferase; Provisional; Region: PRK05793 927704002268 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 927704002269 active site 927704002270 tetramer interface [polypeptide binding]; other site 927704002271 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 927704002272 active site 927704002273 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 927704002274 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 927704002275 dimerization interface [polypeptide binding]; other site 927704002276 putative ATP binding site [chemical binding]; other site 927704002277 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 927704002278 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 927704002279 active site 927704002280 substrate binding site [chemical binding]; other site 927704002281 cosubstrate binding site; other site 927704002282 catalytic site [active] 927704002283 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 927704002284 purine monophosphate binding site [chemical binding]; other site 927704002285 dimer interface [polypeptide binding]; other site 927704002286 putative catalytic residues [active] 927704002287 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 927704002288 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 927704002289 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 927704002290 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 927704002291 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 927704002292 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 927704002293 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 927704002294 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 927704002295 substrate binding pocket [chemical binding]; other site 927704002296 membrane-bound complex binding site; other site 927704002297 hinge residues; other site 927704002298 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 927704002299 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 927704002300 Preprotein translocase subunit; Region: YajC; pfam02699 927704002301 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 927704002302 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 927704002303 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 927704002304 AAA domain; Region: AAA_17; cl17253 927704002305 protein-export membrane protein SecD; Region: secD; TIGR01129 927704002306 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 927704002307 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 927704002308 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 927704002309 Protein export membrane protein; Region: SecD_SecF; pfam02355 927704002310 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 927704002311 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 927704002312 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 927704002313 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 927704002314 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 927704002315 putative active site [active] 927704002316 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 927704002317 substrate binding site; other site 927704002318 dimer interface; other site 927704002319 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 927704002320 homotrimer interaction site [polypeptide binding]; other site 927704002321 zinc binding site [ion binding]; other site 927704002322 CDP-binding sites; other site 927704002323 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 927704002324 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 927704002325 active site 927704002326 HIGH motif; other site 927704002327 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 927704002328 KMSKS motif; other site 927704002329 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 927704002330 tRNA binding surface [nucleotide binding]; other site 927704002331 anticodon binding site; other site 927704002332 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 927704002333 dimerization interface [polypeptide binding]; other site 927704002334 active site 927704002335 metal binding site [ion binding]; metal-binding site 927704002336 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 927704002337 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 927704002338 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 927704002339 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 927704002340 RNA polymerase factor sigma-70; Validated; Region: PRK08295 927704002341 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 927704002342 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 927704002343 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 927704002344 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 927704002345 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 927704002346 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704002347 dimer interface [polypeptide binding]; other site 927704002348 conserved gate region; other site 927704002349 putative PBP binding loops; other site 927704002350 ABC-ATPase subunit interface; other site 927704002351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704002352 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 927704002353 Walker A/P-loop; other site 927704002354 ATP binding site [chemical binding]; other site 927704002355 Q-loop/lid; other site 927704002356 ABC transporter signature motif; other site 927704002357 Walker B; other site 927704002358 D-loop; other site 927704002359 H-loop/switch region; other site 927704002360 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 927704002361 ATP cone domain; Region: ATP-cone; pfam03477 927704002362 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 927704002363 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 927704002364 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 927704002365 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 927704002366 Ligand Binding Site [chemical binding]; other site 927704002367 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 927704002368 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 927704002369 heterodimer interface [polypeptide binding]; other site 927704002370 substrate interaction site [chemical binding]; other site 927704002371 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 927704002372 B12 binding site [chemical binding]; other site 927704002373 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 927704002374 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 927704002375 active site 927704002376 substrate binding site [chemical binding]; other site 927704002377 coenzyme B12 binding site [chemical binding]; other site 927704002378 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 927704002379 B12 binding site [chemical binding]; other site 927704002380 cobalt ligand [ion binding]; other site 927704002381 membrane ATPase/protein kinase; Provisional; Region: PRK09435 927704002382 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 927704002383 Walker A; other site 927704002384 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 927704002385 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 927704002386 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 927704002387 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 927704002388 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 927704002389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704002390 dimer interface [polypeptide binding]; other site 927704002391 conserved gate region; other site 927704002392 putative PBP binding loops; other site 927704002393 ABC-ATPase subunit interface; other site 927704002394 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 927704002395 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704002396 dimer interface [polypeptide binding]; other site 927704002397 conserved gate region; other site 927704002398 putative PBP binding loops; other site 927704002399 ABC-ATPase subunit interface; other site 927704002400 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 927704002401 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 927704002402 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 927704002403 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 927704002404 Walker A/P-loop; other site 927704002405 ATP binding site [chemical binding]; other site 927704002406 Q-loop/lid; other site 927704002407 ABC transporter signature motif; other site 927704002408 Walker B; other site 927704002409 D-loop; other site 927704002410 H-loop/switch region; other site 927704002411 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 927704002412 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 927704002413 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 927704002414 Walker A/P-loop; other site 927704002415 ATP binding site [chemical binding]; other site 927704002416 Q-loop/lid; other site 927704002417 ABC transporter signature motif; other site 927704002418 Walker B; other site 927704002419 D-loop; other site 927704002420 H-loop/switch region; other site 927704002421 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 927704002422 4Fe-4S binding domain; Region: Fer4; pfam00037 927704002423 4Fe-4S binding domain; Region: Fer4_6; pfam12837 927704002424 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 927704002425 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 927704002426 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 927704002427 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 927704002428 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 927704002429 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 927704002430 FeS/SAM binding site; other site 927704002431 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 927704002432 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 927704002433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704002434 dimer interface [polypeptide binding]; other site 927704002435 conserved gate region; other site 927704002436 putative PBP binding loops; other site 927704002437 ABC-ATPase subunit interface; other site 927704002438 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 927704002439 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704002440 dimer interface [polypeptide binding]; other site 927704002441 conserved gate region; other site 927704002442 putative PBP binding loops; other site 927704002443 ABC-ATPase subunit interface; other site 927704002444 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 927704002445 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 927704002446 Walker A/P-loop; other site 927704002447 ATP binding site [chemical binding]; other site 927704002448 Q-loop/lid; other site 927704002449 ABC transporter signature motif; other site 927704002450 Walker B; other site 927704002451 D-loop; other site 927704002452 H-loop/switch region; other site 927704002453 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 927704002454 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 927704002455 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 927704002456 Walker A/P-loop; other site 927704002457 ATP binding site [chemical binding]; other site 927704002458 Q-loop/lid; other site 927704002459 ABC transporter signature motif; other site 927704002460 Walker B; other site 927704002461 D-loop; other site 927704002462 H-loop/switch region; other site 927704002463 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 927704002464 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 927704002465 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 927704002466 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 927704002467 metal ion-dependent adhesion site (MIDAS); other site 927704002468 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 927704002469 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 927704002470 HSP70 interaction site [polypeptide binding]; other site 927704002471 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 927704002472 phosphopeptide binding site; other site 927704002473 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 927704002474 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 927704002475 phosphopeptide binding site; other site 927704002476 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 927704002477 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 927704002478 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 927704002479 Sel1 repeat; Region: Sel1; cl02723 927704002480 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 927704002481 nucleotide binding site [chemical binding]; other site 927704002482 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 927704002483 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 927704002484 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 927704002485 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 927704002486 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 927704002487 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 927704002488 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 927704002489 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 927704002490 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 927704002491 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 927704002492 RHS Repeat; Region: RHS_repeat; pfam05593 927704002493 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 927704002494 RHS Repeat; Region: RHS_repeat; pfam05593 927704002495 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 927704002496 RHS Repeat; Region: RHS_repeat; pfam05593 927704002497 RHS Repeat; Region: RHS_repeat; pfam05593 927704002498 RHS Repeat; Region: RHS_repeat; pfam05593 927704002499 RHS Repeat; Region: RHS_repeat; pfam05593 927704002500 RHS Repeat; Region: RHS_repeat; pfam05593 927704002501 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 927704002502 A nuclease of the HNH/ENDO VII superfamily with conserved LHH; Region: LHH; pfam14411 927704002503 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 927704002504 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 927704002505 RHS Repeat; Region: RHS_repeat; cl11982 927704002506 RHS Repeat; Region: RHS_repeat; pfam05593 927704002507 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 927704002508 RHS Repeat; Region: RHS_repeat; pfam05593 927704002509 RHS Repeat; Region: RHS_repeat; pfam05593 927704002510 RHS Repeat; Region: RHS_repeat; cl11982 927704002511 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 927704002512 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 927704002513 active site 927704002514 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 927704002515 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 927704002516 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 927704002517 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 927704002518 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 927704002519 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 927704002520 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 927704002521 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 927704002522 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 927704002523 HflX GTPase family; Region: HflX; cd01878 927704002524 G1 box; other site 927704002525 GTP/Mg2+ binding site [chemical binding]; other site 927704002526 Switch I region; other site 927704002527 G2 box; other site 927704002528 G3 box; other site 927704002529 Switch II region; other site 927704002530 G4 box; other site 927704002531 G5 box; other site 927704002532 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 927704002533 Aluminium resistance protein; Region: Alum_res; pfam06838 927704002534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 927704002535 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 927704002536 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 927704002537 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 927704002538 putative dimer interface [polypeptide binding]; other site 927704002539 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 927704002540 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 927704002541 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 927704002542 S-adenosylmethionine binding site [chemical binding]; other site 927704002543 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 927704002544 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 927704002545 acyl-activating enzyme (AAE) consensus motif; other site 927704002546 active site 927704002547 AMP binding site [chemical binding]; other site 927704002548 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 927704002549 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 927704002550 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 927704002551 Family description; Region: UvrD_C_2; pfam13538 927704002552 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 927704002553 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 927704002554 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 927704002555 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704002556 Walker A/P-loop; other site 927704002557 ATP binding site [chemical binding]; other site 927704002558 Q-loop/lid; other site 927704002559 ABC transporter signature motif; other site 927704002560 Walker B; other site 927704002561 D-loop; other site 927704002562 H-loop/switch region; other site 927704002563 TOBE domain; Region: TOBE_2; pfam08402 927704002564 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704002565 dimer interface [polypeptide binding]; other site 927704002566 conserved gate region; other site 927704002567 putative PBP binding loops; other site 927704002568 ABC-ATPase subunit interface; other site 927704002569 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 927704002570 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704002571 dimer interface [polypeptide binding]; other site 927704002572 ABC-ATPase subunit interface; other site 927704002573 putative PBP binding loops; other site 927704002574 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 927704002575 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 927704002576 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 927704002577 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 927704002578 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 927704002579 active site 927704002580 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 927704002581 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 927704002582 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 927704002583 active site 927704002584 Methyltransferase domain; Region: Methyltransf_23; pfam13489 927704002585 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 927704002586 S-adenosylmethionine binding site [chemical binding]; other site 927704002587 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 927704002588 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 927704002589 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 927704002590 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 927704002591 BioY family; Region: BioY; pfam02632 927704002592 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 927704002593 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 927704002594 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 927704002595 homodimer interface [polypeptide binding]; other site 927704002596 substrate-cofactor binding pocket; other site 927704002597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704002598 catalytic residue [active] 927704002599 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 927704002600 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 927704002601 dimer interface [polypeptide binding]; other site 927704002602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704002603 catalytic residue [active] 927704002604 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 927704002605 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 927704002606 S-adenosylmethionine binding site [chemical binding]; other site 927704002607 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 927704002608 active site 927704002609 SAM binding site [chemical binding]; other site 927704002610 homodimer interface [polypeptide binding]; other site 927704002611 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 927704002612 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 927704002613 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 927704002614 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 927704002615 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 927704002616 active site 927704002617 SAM binding site [chemical binding]; other site 927704002618 homodimer interface [polypeptide binding]; other site 927704002619 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 927704002620 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 927704002621 Predicted transcriptional regulator [Transcription]; Region: COG1959 927704002622 Transcriptional regulator; Region: Rrf2; cl17282 927704002623 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 927704002624 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 927704002625 non-specific DNA binding site [nucleotide binding]; other site 927704002626 salt bridge; other site 927704002627 sequence-specific DNA binding site [nucleotide binding]; other site 927704002628 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 927704002629 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 927704002630 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 927704002631 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 927704002632 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 927704002633 ATP cone domain; Region: ATP-cone; pfam03477 927704002634 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 927704002635 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 927704002636 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 927704002637 FeS/SAM binding site; other site 927704002638 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 927704002639 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 927704002640 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 927704002641 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 927704002642 catalytic residue [active] 927704002643 Protein of unknown function (DUF552); Region: DUF552; pfam04472 927704002644 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 927704002645 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 927704002646 RNA binding surface [nucleotide binding]; other site 927704002647 DivIVA protein; Region: DivIVA; pfam05103 927704002648 DivIVA domain; Region: DivI1A_domain; TIGR03544 927704002649 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 927704002650 lipoprotein signal peptidase; Provisional; Region: PRK14787 927704002651 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 927704002652 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 927704002653 RNA binding surface [nucleotide binding]; other site 927704002654 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 927704002655 active site 927704002656 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 927704002657 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 927704002658 active site 927704002659 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 927704002660 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 927704002661 active site 927704002662 substrate binding site [chemical binding]; other site 927704002663 metal binding site [ion binding]; metal-binding site 927704002664 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 927704002665 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 927704002666 active site 927704002667 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 927704002668 active site 927704002669 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 927704002670 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 927704002671 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 927704002672 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 927704002673 inhibitor-cofactor binding pocket; inhibition site 927704002674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704002675 catalytic residue [active] 927704002676 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 927704002677 Peptidase family U32; Region: Peptidase_U32; pfam01136 927704002678 Peptidase family U32; Region: Peptidase_U32; pfam01136 927704002679 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 927704002680 active site 927704002681 NTP binding site [chemical binding]; other site 927704002682 metal binding triad [ion binding]; metal-binding site 927704002683 antibiotic binding site [chemical binding]; other site 927704002684 Protein of unknown function DUF86; Region: DUF86; cl01031 927704002685 haemagglutination activity domain; Region: Haemagg_act; cl05436 927704002686 Surface antigen; Region: Bac_surface_Ag; pfam01103 927704002687 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704002688 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 927704002689 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704002690 Winged helix-turn helix; Region: HTH_29; pfam13551 927704002691 Integrase core domain; Region: rve; pfam00665 927704002692 Integrase core domain; Region: rve_2; pfam13333 927704002693 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 927704002694 TIGR02677 family protein; Region: TIGR02677 927704002695 Protein of unknown function (DUF2398); Region: DUF2398; pfam09661 927704002696 TIGR02680 family protein; Region: TIGR02680 927704002697 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 927704002698 TIGR02679 family protein; Region: TIGR02679 927704002699 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cd00188 927704002700 active site 927704002701 metal binding site [ion binding]; metal-binding site 927704002702 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 927704002703 dimerization interface [polypeptide binding]; other site 927704002704 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704002705 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704002706 dimer interface [polypeptide binding]; other site 927704002707 putative CheW interface [polypeptide binding]; other site 927704002708 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 927704002709 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 927704002710 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 927704002711 dimer interface [polypeptide binding]; other site 927704002712 motif 1; other site 927704002713 active site 927704002714 motif 2; other site 927704002715 motif 3; other site 927704002716 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 927704002717 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 927704002718 putative tRNA-binding site [nucleotide binding]; other site 927704002719 B3/4 domain; Region: B3_4; pfam03483 927704002720 tRNA synthetase B5 domain; Region: B5; smart00874 927704002721 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 927704002722 dimer interface [polypeptide binding]; other site 927704002723 motif 1; other site 927704002724 motif 3; other site 927704002725 motif 2; other site 927704002726 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 927704002727 Cell division protein ZapA; Region: ZapA; cl01146 927704002728 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 927704002729 HAMP domain; Region: HAMP; pfam00672 927704002730 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704002731 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704002732 dimer interface [polypeptide binding]; other site 927704002733 putative CheW interface [polypeptide binding]; other site 927704002734 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 927704002735 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704002736 active site 927704002737 phosphorylation site [posttranslational modification] 927704002738 intermolecular recognition site; other site 927704002739 dimerization interface [polypeptide binding]; other site 927704002740 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 927704002741 DNA binding site [nucleotide binding] 927704002742 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 927704002743 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 927704002744 dimer interface [polypeptide binding]; other site 927704002745 phosphorylation site [posttranslational modification] 927704002746 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 927704002747 ATP binding site [chemical binding]; other site 927704002748 Mg2+ binding site [ion binding]; other site 927704002749 G-X-G motif; other site 927704002750 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 927704002751 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 927704002752 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 927704002753 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 927704002754 HlyD family secretion protein; Region: HlyD_3; pfam13437 927704002755 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 927704002756 Protein export membrane protein; Region: SecD_SecF; cl14618 927704002757 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 927704002758 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 927704002759 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 927704002760 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 927704002761 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 927704002762 active site 927704002763 dimer interface [polypeptide binding]; other site 927704002764 motif 1; other site 927704002765 motif 2; other site 927704002766 motif 3; other site 927704002767 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 927704002768 anticodon binding site; other site 927704002769 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 927704002770 Precorrin-8X methylmutase; Region: CbiC; pfam02570 927704002771 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 927704002772 homotrimer interface [polypeptide binding]; other site 927704002773 Walker A motif; other site 927704002774 GTP binding site [chemical binding]; other site 927704002775 Walker B motif; other site 927704002776 cobyric acid synthase; Provisional; Region: PRK00784 927704002777 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 927704002778 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 927704002779 catalytic triad [active] 927704002780 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 927704002781 cobalamin synthase; Reviewed; Region: cobS; PRK00235 927704002782 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 927704002783 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 927704002784 intersubunit interface [polypeptide binding]; other site 927704002785 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 927704002786 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 927704002787 N-terminal plug; other site 927704002788 ligand-binding site [chemical binding]; other site 927704002789 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 927704002790 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 927704002791 Walker A/P-loop; other site 927704002792 ATP binding site [chemical binding]; other site 927704002793 Q-loop/lid; other site 927704002794 ABC transporter signature motif; other site 927704002795 Walker B; other site 927704002796 D-loop; other site 927704002797 H-loop/switch region; other site 927704002798 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 927704002799 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 927704002800 dimer interface [polypeptide binding]; other site 927704002801 ABC-ATPase subunit interface; other site 927704002802 putative PBP binding regions; other site 927704002803 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 927704002804 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 927704002805 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 927704002806 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 927704002807 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 927704002808 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 927704002809 N-terminal plug; other site 927704002810 ligand-binding site [chemical binding]; other site 927704002811 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 927704002812 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 927704002813 active site 927704002814 metal binding site [ion binding]; metal-binding site 927704002815 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 927704002816 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 927704002817 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 927704002818 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 927704002819 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 927704002820 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 927704002821 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 927704002822 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 927704002823 dimer interface [polypeptide binding]; other site 927704002824 FMN binding site [chemical binding]; other site 927704002825 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 927704002826 DHH family; Region: DHH; pfam01368 927704002827 DHHA1 domain; Region: DHHA1; pfam02272 927704002828 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 927704002829 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 927704002830 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 927704002831 Zn2+ binding site [ion binding]; other site 927704002832 Mg2+ binding site [ion binding]; other site 927704002833 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 927704002834 synthetase active site [active] 927704002835 NTP binding site [chemical binding]; other site 927704002836 metal binding site [ion binding]; metal-binding site 927704002837 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 927704002838 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 927704002839 ferric uptake regulator; Provisional; Region: fur; PRK09462 927704002840 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 927704002841 metal binding site 2 [ion binding]; metal-binding site 927704002842 putative DNA binding helix; other site 927704002843 metal binding site 1 [ion binding]; metal-binding site 927704002844 dimer interface [polypeptide binding]; other site 927704002845 structural Zn2+ binding site [ion binding]; other site 927704002846 coproporphyrinogen dehydrogenase HemZ; Region: rSAM_HemZ; TIGR03994 927704002847 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 927704002848 FeS/SAM binding site; other site 927704002849 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 927704002850 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 927704002851 dimer interface [polypeptide binding]; other site 927704002852 motif 1; other site 927704002853 active site 927704002854 motif 2; other site 927704002855 motif 3; other site 927704002856 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 927704002857 anticodon binding site; other site 927704002858 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 927704002859 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 927704002860 dimer interface [polypeptide binding]; other site 927704002861 anticodon binding site; other site 927704002862 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 927704002863 homodimer interface [polypeptide binding]; other site 927704002864 motif 1; other site 927704002865 active site 927704002866 motif 2; other site 927704002867 GAD domain; Region: GAD; pfam02938 927704002868 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 927704002869 motif 3; other site 927704002870 translation initiation factor IF-3; Region: infC; TIGR00168 927704002871 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 927704002872 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 927704002873 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 927704002874 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 927704002875 23S rRNA binding site [nucleotide binding]; other site 927704002876 L21 binding site [polypeptide binding]; other site 927704002877 L13 binding site [polypeptide binding]; other site 927704002878 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 927704002879 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 927704002880 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 927704002881 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 927704002882 DHHW protein; Region: DHHW; pfam14286 927704002883 Thiamine pyrophosphokinase; Region: TPK; cd07995 927704002884 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 927704002885 active site 927704002886 dimerization interface [polypeptide binding]; other site 927704002887 thiamine binding site [chemical binding]; other site 927704002888 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 927704002889 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 927704002890 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 927704002891 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 927704002892 Domain of unknown function (DUF386); Region: DUF386; cl01047 927704002893 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 927704002894 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 927704002895 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 927704002896 dimerization interface [polypeptide binding]; other site 927704002897 ATP binding site [chemical binding]; other site 927704002898 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 927704002899 dimerization interface [polypeptide binding]; other site 927704002900 ATP binding site [chemical binding]; other site 927704002901 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 927704002902 putative active site [active] 927704002903 catalytic triad [active] 927704002904 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 927704002905 active pocket/dimerization site; other site 927704002906 active site 927704002907 phosphorylation site [posttranslational modification] 927704002908 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 927704002909 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 927704002910 PhoH-like protein; Region: PhoH; pfam02562 927704002911 metal-binding heat shock protein; Provisional; Region: PRK00016 927704002912 GTPase Era; Reviewed; Region: era; PRK00089 927704002913 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 927704002914 G1 box; other site 927704002915 GTP/Mg2+ binding site [chemical binding]; other site 927704002916 Switch I region; other site 927704002917 G2 box; other site 927704002918 Switch II region; other site 927704002919 G3 box; other site 927704002920 G4 box; other site 927704002921 G5 box; other site 927704002922 KH domain; Region: KH_2; pfam07650 927704002923 Uncharacterized conserved protein [Function unknown]; Region: COG2928 927704002924 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 927704002925 Recombination protein O N terminal; Region: RecO_N; pfam11967 927704002926 Recombination protein O C terminal; Region: RecO_C; pfam02565 927704002927 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 927704002928 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 927704002929 acyl-activating enzyme (AAE) consensus motif; other site 927704002930 AMP binding site [chemical binding]; other site 927704002931 active site 927704002932 CoA binding site [chemical binding]; other site 927704002933 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704002934 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 927704002935 Walker A/P-loop; other site 927704002936 ATP binding site [chemical binding]; other site 927704002937 Q-loop/lid; other site 927704002938 ABC transporter signature motif; other site 927704002939 Walker B; other site 927704002940 D-loop; other site 927704002941 H-loop/switch region; other site 927704002942 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 927704002943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704002944 Walker A/P-loop; other site 927704002945 ATP binding site [chemical binding]; other site 927704002946 Q-loop/lid; other site 927704002947 ABC transporter signature motif; other site 927704002948 Walker B; other site 927704002949 D-loop; other site 927704002950 H-loop/switch region; other site 927704002951 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 927704002952 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 927704002953 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 927704002954 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 927704002955 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 927704002956 active site 927704002957 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 927704002958 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 927704002959 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 927704002960 shikimate binding site; other site 927704002961 NAD(P) binding site [chemical binding]; other site 927704002962 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 927704002963 Bax inhibitor 1 like; Region: BaxI_1; cl17691 927704002964 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 927704002965 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 927704002966 catalytic core [active] 927704002967 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 927704002968 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 927704002969 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 927704002970 catalytic motif [active] 927704002971 Zn binding site [ion binding]; other site 927704002972 5-amino-6-(5-phosphoribosylamino)uracil reductase; Validated; Region: PRK05625 927704002973 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 927704002974 Lumazine binding domain; Region: Lum_binding; pfam00677 927704002975 Lumazine binding domain; Region: Lum_binding; pfam00677 927704002976 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 927704002977 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 927704002978 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 927704002979 dimerization interface [polypeptide binding]; other site 927704002980 active site 927704002981 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 927704002982 homopentamer interface [polypeptide binding]; other site 927704002983 active site 927704002984 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 927704002985 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 927704002986 active site 927704002987 metal binding site [ion binding]; metal-binding site 927704002988 homotetramer interface [polypeptide binding]; other site 927704002989 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 927704002990 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 927704002991 dimerization interface [polypeptide binding]; other site 927704002992 domain crossover interface; other site 927704002993 redox-dependent activation switch; other site 927704002994 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 927704002995 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 927704002996 DNA binding residues [nucleotide binding] 927704002997 dimerization interface [polypeptide binding]; other site 927704002998 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 927704002999 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 927704003000 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 927704003001 active site turn [active] 927704003002 phosphorylation site [posttranslational modification] 927704003003 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 927704003004 HPr interaction site; other site 927704003005 glycerol kinase (GK) interaction site [polypeptide binding]; other site 927704003006 active site 927704003007 phosphorylation site [posttranslational modification] 927704003008 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 927704003009 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 927704003010 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 927704003011 NAD(P) binding site [chemical binding]; other site 927704003012 LDH/MDH dimer interface [polypeptide binding]; other site 927704003013 substrate binding site [chemical binding]; other site 927704003014 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 927704003015 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 927704003016 active site 927704003017 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 927704003018 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 927704003019 dimer interface [polypeptide binding]; other site 927704003020 active site 927704003021 metal binding site [ion binding]; metal-binding site 927704003022 glutathione binding site [chemical binding]; other site 927704003023 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 927704003024 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 927704003025 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 927704003026 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 927704003027 catalytic residue [active] 927704003028 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 927704003029 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 927704003030 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 927704003031 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 927704003032 active site 927704003033 ribulose/triose binding site [chemical binding]; other site 927704003034 phosphate binding site [ion binding]; other site 927704003035 substrate (anthranilate) binding pocket [chemical binding]; other site 927704003036 product (indole) binding pocket [chemical binding]; other site 927704003037 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 927704003038 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 927704003039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704003040 catalytic residue [active] 927704003041 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 927704003042 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 927704003043 substrate binding site [chemical binding]; other site 927704003044 active site 927704003045 catalytic residues [active] 927704003046 heterodimer interface [polypeptide binding]; other site 927704003047 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 927704003048 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 927704003049 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 927704003050 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 927704003051 minor groove reading motif; other site 927704003052 helix-hairpin-helix signature motif; other site 927704003053 substrate binding pocket [chemical binding]; other site 927704003054 active site 927704003055 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 927704003056 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 927704003057 Coenzyme A binding pocket [chemical binding]; other site 927704003058 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 927704003059 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 927704003060 Prephenate dehydrogenase; Region: PDH; pfam02153 927704003061 prephenate dehydrogenase; Validated; Region: PRK08507 927704003062 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 927704003063 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 927704003064 Walker A/P-loop; other site 927704003065 ATP binding site [chemical binding]; other site 927704003066 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 927704003067 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 927704003068 Q-loop/lid; other site 927704003069 ABC transporter signature motif; other site 927704003070 Walker B; other site 927704003071 D-loop; other site 927704003072 H-loop/switch region; other site 927704003073 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 927704003074 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 927704003075 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 927704003076 P loop; other site 927704003077 GTP binding site [chemical binding]; other site 927704003078 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 927704003079 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 927704003080 AsnC family; Region: AsnC_trans_reg; pfam01037 927704003081 hypothetical protein; Validated; Region: PRK07682 927704003082 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 927704003083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704003084 homodimer interface [polypeptide binding]; other site 927704003085 catalytic residue [active] 927704003086 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 927704003087 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 927704003088 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 927704003089 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 927704003090 Glutamine amidotransferase class-I; Region: GATase; pfam00117 927704003091 glutamine binding [chemical binding]; other site 927704003092 catalytic triad [active] 927704003093 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 927704003094 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 927704003095 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 927704003096 RNA binding site [nucleotide binding]; other site 927704003097 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 927704003098 RNA binding site [nucleotide binding]; other site 927704003099 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 927704003100 RNA binding site [nucleotide binding]; other site 927704003101 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 927704003102 RNA binding site [nucleotide binding]; other site 927704003103 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 927704003104 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 927704003105 Protein of unknown function (DUF512); Region: DUF512; pfam04459 927704003106 GTP-binding protein Der; Reviewed; Region: PRK00093 927704003107 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 927704003108 G1 box; other site 927704003109 GTP/Mg2+ binding site [chemical binding]; other site 927704003110 Switch I region; other site 927704003111 G2 box; other site 927704003112 Switch II region; other site 927704003113 G3 box; other site 927704003114 G4 box; other site 927704003115 G5 box; other site 927704003116 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 927704003117 G1 box; other site 927704003118 GTP/Mg2+ binding site [chemical binding]; other site 927704003119 Switch I region; other site 927704003120 G2 box; other site 927704003121 G3 box; other site 927704003122 Switch II region; other site 927704003123 G4 box; other site 927704003124 G5 box; other site 927704003125 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 927704003126 hypothetical protein; Provisional; Region: PRK04435 927704003127 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 927704003128 homoserine dehydrogenase; Provisional; Region: PRK06349 927704003129 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 927704003130 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 927704003131 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 927704003132 homoserine kinase; Provisional; Region: PRK01212 927704003133 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 927704003134 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 927704003135 active site 927704003136 NTP binding site [chemical binding]; other site 927704003137 metal binding triad [ion binding]; metal-binding site 927704003138 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 927704003139 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 927704003140 Zn2+ binding site [ion binding]; other site 927704003141 Mg2+ binding site [ion binding]; other site 927704003142 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 927704003143 active site 927704003144 catalytic triad [active] 927704003145 oxyanion hole [active] 927704003146 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 927704003147 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 927704003148 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 927704003149 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 927704003150 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 927704003151 active site 927704003152 tetramer interface; other site 927704003153 Protein of unknown function (DUF445); Region: DUF445; pfam04286 927704003154 Protein of unknown function (DUF445); Region: DUF445; pfam04286 927704003155 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 927704003156 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 927704003157 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 927704003158 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 927704003159 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 927704003160 carboxyltransferase (CT) interaction site; other site 927704003161 biotinylation site [posttranslational modification]; other site 927704003162 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 927704003163 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 927704003164 HIGH motif; other site 927704003165 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 927704003166 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 927704003167 active site 927704003168 KMSKS motif; other site 927704003169 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 927704003170 tRNA binding surface [nucleotide binding]; other site 927704003171 anticodon binding site; other site 927704003172 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 927704003173 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 927704003174 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 927704003175 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 927704003176 O-Antigen ligase; Region: Wzy_C; cl04850 927704003177 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 927704003178 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 927704003179 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 927704003180 CoA binding domain; Region: CoA_binding; smart00881 927704003181 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 927704003182 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 927704003183 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 927704003184 FeS/SAM binding site; other site 927704003185 TRAM domain; Region: TRAM; pfam01938 927704003186 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 927704003187 MutS domain I; Region: MutS_I; pfam01624 927704003188 MutS domain II; Region: MutS_II; pfam05188 927704003189 MutS domain III; Region: MutS_III; pfam05192 927704003190 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 927704003191 Walker A/P-loop; other site 927704003192 ATP binding site [chemical binding]; other site 927704003193 Q-loop/lid; other site 927704003194 ABC transporter signature motif; other site 927704003195 Walker B; other site 927704003196 D-loop; other site 927704003197 H-loop/switch region; other site 927704003198 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 927704003199 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 927704003200 ATP binding site [chemical binding]; other site 927704003201 Mg2+ binding site [ion binding]; other site 927704003202 G-X-G motif; other site 927704003203 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 927704003204 ATP binding site [chemical binding]; other site 927704003205 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 927704003206 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 927704003207 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 927704003208 active site 927704003209 DNA polymerase IV; Validated; Region: PRK02406 927704003210 DNA binding site [nucleotide binding] 927704003211 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 927704003212 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 927704003213 hexamer interface [polypeptide binding]; other site 927704003214 ligand binding site [chemical binding]; other site 927704003215 putative active site [active] 927704003216 NAD(P) binding site [chemical binding]; other site 927704003217 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 927704003218 intersubunit interface [polypeptide binding]; other site 927704003219 active site 927704003220 Zn2+ binding site [ion binding]; other site 927704003221 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 927704003222 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 927704003223 hypothetical protein; Validated; Region: PRK00110 927704003224 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 927704003225 active site 927704003226 putative DNA-binding cleft [nucleotide binding]; other site 927704003227 dimer interface [polypeptide binding]; other site 927704003228 Protein of unknown function (DUF441); Region: DUF441; pfam04284 927704003229 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 927704003230 transmembrane helices; other site 927704003231 hypothetical protein; Provisional; Region: PRK03881 927704003232 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 927704003233 AMMECR1; Region: AMMECR1; pfam01871 927704003234 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 927704003235 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 927704003236 FeS/SAM binding site; other site 927704003237 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 927704003238 Methyltransferase domain; Region: Methyltransf_23; pfam13489 927704003239 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 927704003240 S-adenosylmethionine binding site [chemical binding]; other site 927704003241 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 927704003242 PLD-like domain; Region: PLDc_2; pfam13091 927704003243 putative active site [active] 927704003244 catalytic site [active] 927704003245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 927704003246 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 927704003247 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 927704003248 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 927704003249 Coenzyme A binding pocket [chemical binding]; other site 927704003250 DEAD-like helicases superfamily; Region: DEXDc; smart00487 927704003251 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 927704003252 ATP binding site [chemical binding]; other site 927704003253 putative Mg++ binding site [ion binding]; other site 927704003254 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 927704003255 nucleotide binding region [chemical binding]; other site 927704003256 ATP-binding site [chemical binding]; other site 927704003257 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 927704003258 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 927704003259 ATP binding site [chemical binding]; other site 927704003260 putative Mg++ binding site [ion binding]; other site 927704003261 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 927704003262 nucleotide binding region [chemical binding]; other site 927704003263 ATP-binding site [chemical binding]; other site 927704003264 AAA ATPase domain; Region: AAA_16; pfam13191 927704003265 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 927704003266 ATP-binding site [chemical binding]; other site 927704003267 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 927704003268 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 927704003269 Family description; Region: UvrD_C_2; pfam13538 927704003270 potential frameshift: common BLAST hit: gi|339443065|ref|YP_004709070.1| putative transposase 927704003271 Integrase core domain; Region: rve; pfam00665 927704003272 Integrase core domain; Region: rve_3; pfam13683 927704003273 HTH-like domain; Region: HTH_21; pfam13276 927704003274 Transposase; Region: HTH_Tnp_1; cl17663 927704003275 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 927704003276 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 927704003277 EamA-like transporter family; Region: EamA; pfam00892 927704003278 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 927704003279 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 927704003280 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 927704003281 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 927704003282 putative active site [active] 927704003283 putative metal binding site [ion binding]; other site 927704003284 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 927704003285 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 927704003286 putative active site pocket [active] 927704003287 cleavage site 927704003288 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 927704003289 HsdM N-terminal domain; Region: HsdM_N; pfam12161 927704003290 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 927704003291 Methyltransferase domain; Region: Methyltransf_26; pfam13659 927704003292 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 927704003293 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 927704003294 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 927704003295 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 927704003296 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 927704003297 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 927704003298 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 927704003299 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 927704003300 ATP binding site [chemical binding]; other site 927704003301 putative Mg++ binding site [ion binding]; other site 927704003302 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 927704003303 RuvA N terminal domain; Region: RuvA_N; pfam01330 927704003304 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 927704003305 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 927704003306 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 927704003307 Walker A motif; other site 927704003308 ATP binding site [chemical binding]; other site 927704003309 Walker B motif; other site 927704003310 arginine finger; other site 927704003311 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 927704003312 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 927704003313 Ligand Binding Site [chemical binding]; other site 927704003314 Stage II sporulation protein; Region: SpoIID; pfam08486 927704003315 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 927704003316 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 927704003317 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 927704003318 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 927704003319 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 927704003320 catalytic residues [active] 927704003321 catalytic nucleophile [active] 927704003322 Recombinase; Region: Recombinase; pfam07508 927704003323 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 927704003324 YcfA-like protein; Region: YcfA; pfam07927 927704003325 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 927704003326 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704003327 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 927704003328 non-specific DNA binding site [nucleotide binding]; other site 927704003329 salt bridge; other site 927704003330 sequence-specific DNA binding site [nucleotide binding]; other site 927704003331 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 927704003332 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 927704003333 active site 927704003334 catalytic site [active] 927704003335 substrate binding site [chemical binding]; other site 927704003336 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; cl00038 927704003337 Dimer interface [polypeptide binding]; other site 927704003338 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 927704003339 sequence-specific DNA binding site [nucleotide binding]; other site 927704003340 salt bridge; other site 927704003341 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 927704003342 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704003343 Magnesium ion binding site [ion binding]; other site 927704003344 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704003345 Magnesium ion binding site [ion binding]; other site 927704003346 ParB-like nuclease domain; Region: ParBc; pfam02195 927704003347 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK14704 927704003348 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 927704003349 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 927704003350 active site 927704003351 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 927704003352 Phage-related protein [Function unknown]; Region: COG4695; cl01923 927704003353 Phage portal protein; Region: Phage_portal; pfam04860 927704003354 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 927704003355 oligomer interface [polypeptide binding]; other site 927704003356 active site residues [active] 927704003357 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 927704003358 Phage capsid family; Region: Phage_capsid; pfam05065 927704003359 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 927704003360 oligomerization interface [polypeptide binding]; other site 927704003361 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 927704003362 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 927704003363 Protein of unknown function (DUF342); Region: DUF342; pfam03961 927704003364 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 927704003365 Holin family; Region: Phage_holin_4; pfam05105 927704003366 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 927704003367 amidase catalytic site [active] 927704003368 Zn binding residues [ion binding]; other site 927704003369 substrate binding site [chemical binding]; other site 927704003370 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 927704003371 Pyruvate formate lyase 1; Region: PFL1; cd01678 927704003372 coenzyme A binding site [chemical binding]; other site 927704003373 active site 927704003374 catalytic residues [active] 927704003375 glycine loop; other site 927704003376 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 927704003377 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 927704003378 FeS/SAM binding site; other site 927704003379 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 927704003380 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 927704003381 generic binding surface II; other site 927704003382 ssDNA binding site; other site 927704003383 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 927704003384 ATP binding site [chemical binding]; other site 927704003385 putative Mg++ binding site [ion binding]; other site 927704003386 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 927704003387 nucleotide binding region [chemical binding]; other site 927704003388 ATP-binding site [chemical binding]; other site 927704003389 dihydrodipicolinate reductase; Provisional; Region: PRK00048 927704003390 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 927704003391 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 927704003392 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 927704003393 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 927704003394 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 927704003395 twin arginine translocase protein A; Provisional; Region: tatA; PRK00191 927704003396 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 927704003397 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 927704003398 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 927704003399 UbiA prenyltransferase family; Region: UbiA; pfam01040 927704003400 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 927704003401 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 927704003402 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 927704003403 homodimer interface [polypeptide binding]; other site 927704003404 NADP binding site [chemical binding]; other site 927704003405 substrate binding site [chemical binding]; other site 927704003406 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 927704003407 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 927704003408 Potassium binding sites [ion binding]; other site 927704003409 Cesium cation binding sites [ion binding]; other site 927704003410 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 927704003411 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 927704003412 intersubunit interface [polypeptide binding]; other site 927704003413 active site 927704003414 zinc binding site [ion binding]; other site 927704003415 Na+ binding site [ion binding]; other site 927704003416 Sensor protein DegS; Region: DegS; pfam05384 927704003417 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 927704003418 Histidine kinase; Region: HisKA_3; pfam07730 927704003419 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 927704003420 ATP binding site [chemical binding]; other site 927704003421 Mg2+ binding site [ion binding]; other site 927704003422 G-X-G motif; other site 927704003423 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 927704003424 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 927704003425 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 927704003426 active site 927704003427 uracil transporter; Provisional; Region: PRK10720 927704003428 aspartate kinase; Reviewed; Region: PRK06635 927704003429 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 927704003430 putative catalytic residues [active] 927704003431 putative nucleotide binding site [chemical binding]; other site 927704003432 putative aspartate binding site [chemical binding]; other site 927704003433 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 927704003434 putative allosteric regulatory site; other site 927704003435 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 927704003436 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 927704003437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704003438 homodimer interface [polypeptide binding]; other site 927704003439 catalytic residue [active] 927704003440 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 927704003441 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 927704003442 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 927704003443 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 927704003444 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 927704003445 active site 927704003446 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 927704003447 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 927704003448 active site 927704003449 metal binding site [ion binding]; metal-binding site 927704003450 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 927704003451 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 927704003452 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 927704003453 N-terminal plug; other site 927704003454 ligand-binding site [chemical binding]; other site 927704003455 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 927704003456 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 927704003457 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 927704003458 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 927704003459 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 927704003460 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 927704003461 FeS/SAM binding site; other site 927704003462 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 927704003463 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 927704003464 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 927704003465 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 927704003466 ABC-ATPase subunit interface; other site 927704003467 dimer interface [polypeptide binding]; other site 927704003468 putative PBP binding regions; other site 927704003469 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 927704003470 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 927704003471 Walker A/P-loop; other site 927704003472 ATP binding site [chemical binding]; other site 927704003473 Q-loop/lid; other site 927704003474 ABC transporter signature motif; other site 927704003475 Walker B; other site 927704003476 D-loop; other site 927704003477 H-loop/switch region; other site 927704003478 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 927704003479 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 927704003480 Walker A/P-loop; other site 927704003481 ATP binding site [chemical binding]; other site 927704003482 Q-loop/lid; other site 927704003483 ABC transporter signature motif; other site 927704003484 Walker B; other site 927704003485 D-loop; other site 927704003486 H-loop/switch region; other site 927704003487 ABC-2 type transporter; Region: ABC2_membrane; cl17235 927704003488 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 927704003489 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 927704003490 N-terminal plug; other site 927704003491 ligand-binding site [chemical binding]; other site 927704003492 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 927704003493 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 927704003494 intersubunit interface [polypeptide binding]; other site 927704003495 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 927704003496 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 927704003497 Zn2+ binding site [ion binding]; other site 927704003498 Mg2+ binding site [ion binding]; other site 927704003499 excinuclease ABC subunit B; Provisional; Region: PRK05298 927704003500 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 927704003501 ATP binding site [chemical binding]; other site 927704003502 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 927704003503 nucleotide binding region [chemical binding]; other site 927704003504 ATP-binding site [chemical binding]; other site 927704003505 Ultra-violet resistance protein B; Region: UvrB; pfam12344 927704003506 UvrB/uvrC motif; Region: UVR; pfam02151 927704003507 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 927704003508 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 927704003509 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 927704003510 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 927704003511 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 927704003512 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 927704003513 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 927704003514 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 927704003515 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 927704003516 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 927704003517 active site 927704003518 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 927704003519 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 927704003520 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 927704003521 homotetramer interface [polypeptide binding]; other site 927704003522 ligand binding site [chemical binding]; other site 927704003523 catalytic site [active] 927704003524 NAD binding site [chemical binding]; other site 927704003525 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 927704003526 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 927704003527 active site 927704003528 putative substrate binding pocket [chemical binding]; other site 927704003529 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 927704003530 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 927704003531 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 927704003532 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 927704003533 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 927704003534 FAD binding domain; Region: FAD_binding_4; pfam01565 927704003535 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 927704003536 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 927704003537 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 927704003538 Beta-Casp domain; Region: Beta-Casp; smart01027 927704003539 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 927704003540 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 927704003541 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 927704003542 VanW like protein; Region: VanW; pfam04294 927704003543 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 927704003544 oligomerisation interface [polypeptide binding]; other site 927704003545 mobile loop; other site 927704003546 roof hairpin; other site 927704003547 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 927704003548 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 927704003549 ring oligomerisation interface [polypeptide binding]; other site 927704003550 ATP/Mg binding site [chemical binding]; other site 927704003551 stacking interactions; other site 927704003552 hinge regions; other site 927704003553 LabA_like proteins; Region: LabA_like/DUF88; cl10034 927704003554 putative metal binding site [ion binding]; other site 927704003555 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 927704003556 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 927704003557 NMT1/THI5 like; Region: NMT1; pfam09084 927704003558 substrate binding pocket [chemical binding]; other site 927704003559 membrane-bound complex binding site; other site 927704003560 hinge residues; other site 927704003561 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 927704003562 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 927704003563 Walker A/P-loop; other site 927704003564 ATP binding site [chemical binding]; other site 927704003565 Q-loop/lid; other site 927704003566 ABC transporter signature motif; other site 927704003567 Walker B; other site 927704003568 D-loop; other site 927704003569 H-loop/switch region; other site 927704003570 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 927704003571 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704003572 dimer interface [polypeptide binding]; other site 927704003573 conserved gate region; other site 927704003574 putative PBP binding loops; other site 927704003575 ABC-ATPase subunit interface; other site 927704003576 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 927704003577 elongation factor P; Validated; Region: PRK00529 927704003578 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 927704003579 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 927704003580 RNA binding site [nucleotide binding]; other site 927704003581 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 927704003582 RNA binding site [nucleotide binding]; other site 927704003583 Asp23 family; Region: Asp23; pfam03780 927704003584 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 927704003585 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 927704003586 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 927704003587 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 927704003588 generic binding surface II; other site 927704003589 generic binding surface I; other site 927704003590 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 927704003591 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 927704003592 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 927704003593 substrate binding pocket [chemical binding]; other site 927704003594 chain length determination region; other site 927704003595 substrate-Mg2+ binding site; other site 927704003596 catalytic residues [active] 927704003597 aspartate-rich region 1; other site 927704003598 active site lid residues [active] 927704003599 aspartate-rich region 2; other site 927704003600 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 927704003601 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 927704003602 TPP-binding site; other site 927704003603 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 927704003604 PYR/PP interface [polypeptide binding]; other site 927704003605 dimer interface [polypeptide binding]; other site 927704003606 TPP binding site [chemical binding]; other site 927704003607 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 927704003608 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 927704003609 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 927704003610 RNA binding surface [nucleotide binding]; other site 927704003611 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 927704003612 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 927704003613 ATP-NAD kinase; Region: NAD_kinase; pfam01513 927704003614 arginine repressor; Provisional; Region: PRK04280 927704003615 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 927704003616 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 927704003617 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 927704003618 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 927704003619 Walker A/P-loop; other site 927704003620 ATP binding site [chemical binding]; other site 927704003621 Q-loop/lid; other site 927704003622 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 927704003623 ABC transporter signature motif; other site 927704003624 Walker B; other site 927704003625 D-loop; other site 927704003626 H-loop/switch region; other site 927704003627 ethanolamine permease; Region: 2A0305; TIGR00908 927704003628 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 927704003629 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 927704003630 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 927704003631 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 927704003632 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 927704003633 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 927704003634 active site pocket [active] 927704003635 putative dimer interface [polypeptide binding]; other site 927704003636 putative cataytic base [active] 927704003637 cobalamin synthase; Reviewed; Region: cobS; PRK00235 927704003638 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 927704003639 catalytic core [active] 927704003640 Protein of unknown function (DUF819); Region: DUF819; cl02317 927704003641 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 927704003642 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 927704003643 active site 927704003644 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 927704003645 Na binding site [ion binding]; other site 927704003646 Helix-turn-helix domain; Region: HTH_36; pfam13730 927704003647 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704003648 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 927704003649 non-specific DNA binding site [nucleotide binding]; other site 927704003650 salt bridge; other site 927704003651 sequence-specific DNA binding site [nucleotide binding]; other site 927704003652 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 927704003653 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704003654 P-loop; other site 927704003655 Magnesium ion binding site [ion binding]; other site 927704003656 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704003657 Magnesium ion binding site [ion binding]; other site 927704003658 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 927704003659 ParB-like nuclease domain; Region: ParBc; pfam02195 927704003660 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 927704003661 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 927704003662 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704003663 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 927704003664 non-specific DNA binding site [nucleotide binding]; other site 927704003665 salt bridge; other site 927704003666 sequence-specific DNA binding site [nucleotide binding]; other site 927704003667 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 927704003668 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 927704003669 non-heme iron binding site [ion binding]; other site 927704003670 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 927704003671 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 927704003672 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 927704003673 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 927704003674 Coenzyme A binding pocket [chemical binding]; other site 927704003675 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 927704003676 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 927704003677 MPN+ (JAMM) motif; other site 927704003678 Zinc-binding site [ion binding]; other site 927704003679 Predicted membrane protein [Function unknown]; Region: COG2364 927704003680 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 927704003681 hypothetical protein; Reviewed; Region: PRK00024 927704003682 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 927704003683 MPN+ (JAMM) motif; other site 927704003684 Zinc-binding site [ion binding]; other site 927704003685 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 927704003686 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 927704003687 dimer interface [polypeptide binding]; other site 927704003688 ssDNA binding site [nucleotide binding]; other site 927704003689 tetramer (dimer of dimers) interface [polypeptide binding]; other site 927704003690 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 927704003691 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 927704003692 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 927704003693 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 927704003694 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 927704003695 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 927704003696 active site 927704003697 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 927704003698 Transposase, Mutator family; Region: Transposase_mut; pfam00872 927704003699 MULE transposase domain; Region: MULE; pfam10551 927704003700 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 927704003701 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 927704003702 VirB8 protein; Region: VirB8; cl01500 927704003703 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 927704003704 VirB7 interaction site; other site 927704003705 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 927704003706 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 927704003707 Walker A motif; other site 927704003708 ATP binding site [chemical binding]; other site 927704003709 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 927704003710 Walker B motif; other site 927704003711 Transposase; Region: DEDD_Tnp_IS110; pfam01548 927704003712 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 927704003713 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 927704003714 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 927704003715 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 927704003716 ATP binding site [chemical binding]; other site 927704003717 Walker A motif; other site 927704003718 hexamer interface [polypeptide binding]; other site 927704003719 Walker B motif; other site 927704003720 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 927704003721 IHF dimer interface [polypeptide binding]; other site 927704003722 IHF - DNA interface [nucleotide binding]; other site 927704003723 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 927704003724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 927704003725 Coenzyme A binding pocket [chemical binding]; other site 927704003726 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 927704003727 Coenzyme A binding pocket [chemical binding]; other site 927704003728 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 927704003729 AAA domain; Region: AAA_28; pfam13521 927704003730 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 927704003731 putative active site [active] 927704003732 putative metal binding residues [ion binding]; other site 927704003733 signature motif; other site 927704003734 putative dimer interface [polypeptide binding]; other site 927704003735 putative phosphate binding site [ion binding]; other site 927704003736 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 927704003737 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 927704003738 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 927704003739 Fic family protein [Function unknown]; Region: COG3177 927704003740 Fic/DOC family; Region: Fic; pfam02661 927704003741 Uncharacterized conserved protein [Function unknown]; Region: COG4127 927704003742 Restriction endonuclease; Region: Mrr_cat; pfam04471 927704003743 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 927704003744 Y-family of DNA polymerases; Region: PolY; cl12025 927704003745 active site 927704003746 DNA binding site [nucleotide binding] 927704003747 TrbC/VIRB2 family; Region: TrbC; pfam04956 927704003748 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 927704003749 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 927704003750 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 927704003751 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 927704003752 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704003753 Walker A/P-loop; other site 927704003754 ATP binding site [chemical binding]; other site 927704003755 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 927704003756 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 927704003757 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 927704003758 N-acetyl-D-glucosamine binding site [chemical binding]; other site 927704003759 catalytic residue [active] 927704003760 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 927704003761 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 927704003762 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 927704003763 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 927704003764 Peptidase family M23; Region: Peptidase_M23; pfam01551 927704003765 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 927704003766 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 927704003767 classical (c) SDRs; Region: SDR_c; cd05233 927704003768 NAD(P) binding site [chemical binding]; other site 927704003769 active site 927704003770 Fructosamine kinase; Region: Fructosamin_kin; cl17579 927704003771 Phosphotransferase enzyme family; Region: APH; pfam01636 927704003772 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 927704003773 Sel1-like repeats; Region: SEL1; smart00671 927704003774 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 927704003775 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 927704003776 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 927704003777 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 927704003778 dimer interface [polypeptide binding]; other site 927704003779 ssDNA binding site [nucleotide binding]; other site 927704003780 tetramer (dimer of dimers) interface [polypeptide binding]; other site 927704003781 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 927704003782 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 927704003783 YcgL domain; Region: YcgL; cl01189 927704003784 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 927704003785 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 927704003786 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 927704003787 active site 927704003788 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 927704003789 Sel1-like repeats; Region: SEL1; smart00671 927704003790 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 927704003791 regulatory protein interface [polypeptide binding]; other site 927704003792 regulatory phosphorylation site [posttranslational modification]; other site 927704003793 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 927704003794 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 927704003795 Sel1-like repeats; Region: SEL1; smart00671 927704003796 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 927704003797 non-specific DNA binding site [nucleotide binding]; other site 927704003798 salt bridge; other site 927704003799 sequence-specific DNA binding site [nucleotide binding]; other site 927704003800 Nuclease-related domain; Region: NERD; pfam08378 927704003801 AAA ATPase domain; Region: AAA_16; pfam13191 927704003802 AAA domain; Region: AAA_22; pfam13401 927704003803 Family description; Region: UvrD_C_2; pfam13538 927704003804 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 927704003805 nucleotide binding site [chemical binding]; other site 927704003806 SulA interaction site; other site 927704003807 PcfJ-like protein; Region: PcfJ; pfam14284 927704003808 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 927704003809 active site 927704003810 ATP binding site [chemical binding]; other site 927704003811 substrate binding site [chemical binding]; other site 927704003812 activation loop (A-loop); other site 927704003813 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 927704003814 metal ion-dependent adhesion site (MIDAS); other site 927704003815 Protein phosphatase 2C; Region: PP2C_2; pfam13672 927704003816 active site 927704003817 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 927704003818 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 927704003819 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 927704003820 metal ion-dependent adhesion site (MIDAS); other site 927704003821 Protein phosphatase 2C; Region: PP2C_2; pfam13672 927704003822 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 927704003823 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 927704003824 substrate binding site [chemical binding]; other site 927704003825 activation loop (A-loop); other site 927704003826 AAA domain; Region: AAA_11; pfam13086 927704003827 Part of AAA domain; Region: AAA_19; pfam13245 927704003828 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 927704003829 AAA domain; Region: AAA_12; pfam13087 927704003830 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 927704003831 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 927704003832 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 927704003833 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 927704003834 AAA-like domain; Region: AAA_10; pfam12846 927704003835 Transposase, Mutator family; Region: Transposase_mut; pfam00872 927704003836 Ribosomal S13/S15 N-terminal domain; Region: Ribosomal_S13_N; pfam08069 927704003837 MULE transposase domain; Region: MULE; pfam10551 927704003838 MobA/MobL family; Region: MobA_MobL; pfam03389 927704003839 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 927704003840 malic enzyme; Reviewed; Region: PRK12862 927704003841 DNA topoisomerase III; Provisional; Region: PRK07726 927704003842 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 927704003843 active site 927704003844 putative interdomain interaction site [polypeptide binding]; other site 927704003845 putative metal-binding site [ion binding]; other site 927704003846 putative nucleotide binding site [chemical binding]; other site 927704003847 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 927704003848 domain I; other site 927704003849 DNA binding groove [nucleotide binding] 927704003850 phosphate binding site [ion binding]; other site 927704003851 domain II; other site 927704003852 domain III; other site 927704003853 nucleotide binding site [chemical binding]; other site 927704003854 catalytic site [active] 927704003855 domain IV; other site 927704003856 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 927704003857 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 927704003858 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 927704003859 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 927704003860 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 927704003861 DNA binding residues [nucleotide binding] 927704003862 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 927704003863 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 927704003864 catalytic residues [active] 927704003865 catalytic nucleophile [active] 927704003866 Recombinase; Region: Recombinase; pfam07508 927704003867 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 927704003868 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 927704003869 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 927704003870 catalytic residues [active] 927704003871 catalytic nucleophile [active] 927704003872 Recombinase; Region: Recombinase; pfam07508 927704003873 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 927704003874 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 927704003875 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 927704003876 transmembrane helices; other site 927704003877 Predicted membrane protein [Function unknown]; Region: COG2364 927704003878 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 927704003879 MULE transposase domain; Region: MULE; pfam10551 927704003880 Type III pantothenate kinase; Region: Pan_kinase; cl17198 927704003881 hypothetical protein; Provisional; Region: PRK10410 927704003882 Transposase; Region: HTH_Tnp_1; cl17663 927704003883 putative transposase OrfB; Reviewed; Region: PHA02517 927704003884 HTH-like domain; Region: HTH_21; pfam13276 927704003885 Integrase core domain; Region: rve; pfam00665 927704003886 Integrase core domain; Region: rve_3; pfam13683 927704003887 putative RNA ligase; Region: PHA02142 927704003888 Integrase core domain; Region: rve; pfam00665 927704003889 Integrase core domain; Region: rve_2; pfam13333 927704003890 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 927704003891 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 927704003892 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 927704003893 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 927704003894 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 927704003895 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 927704003896 putative active site [active] 927704003897 putative metal binding residues [ion binding]; other site 927704003898 signature motif; other site 927704003899 putative dimer interface [polypeptide binding]; other site 927704003900 putative phosphate binding site [ion binding]; other site 927704003901 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 927704003902 Restriction endonuclease; Region: Mrr_cat; pfam04471 927704003903 Fructosamine kinase; Region: Fructosamin_kin; cl17579 927704003904 Fructosamine kinase; Region: Fructosamin_kin; cl17579 927704003905 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 927704003906 Sel1-like repeats; Region: SEL1; smart00671 927704003907 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 927704003908 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 927704003909 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 927704003910 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 927704003911 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704003912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 927704003913 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704003914 Winged helix-turn helix; Region: HTH_29; pfam13551 927704003915 Integrase core domain; Region: rve; pfam00665 927704003916 Integrase core domain; Region: rve_2; pfam13333 927704003917 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 927704003918 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 927704003919 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 927704003920 Walker A motif; other site 927704003921 ATP binding site [chemical binding]; other site 927704003922 Walker B motif; other site 927704003923 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 927704003924 potential frameshift: common BLAST hit: gi|330839844|ref|YP_004414424.1| carbon-monoxide dehydrogenase, catalytic subunit 927704003925 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 927704003926 ACS interaction site; other site 927704003927 CODH interaction site; other site 927704003928 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 927704003929 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 927704003930 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704003931 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 927704003932 non-specific DNA binding site [nucleotide binding]; other site 927704003933 salt bridge; other site 927704003934 sequence-specific DNA binding site [nucleotide binding]; other site 927704003935 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704003936 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 927704003937 non-specific DNA binding site [nucleotide binding]; other site 927704003938 salt bridge; other site 927704003939 sequence-specific DNA binding site [nucleotide binding]; other site 927704003940 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 927704003941 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 927704003942 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 927704003943 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 927704003944 heat-inducible transcription repressor; Provisional; Region: PRK03911 927704003945 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 927704003946 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 927704003947 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 927704003948 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 927704003949 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 927704003950 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 927704003951 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 927704003952 active site 927704003953 Zn binding site [ion binding]; other site 927704003954 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 927704003955 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 927704003956 active site 927704003957 Zn binding site [ion binding]; other site 927704003958 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 927704003959 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 927704003960 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 927704003961 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 927704003962 dimer interface [polypeptide binding]; other site 927704003963 phosphorylation site [posttranslational modification] 927704003964 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 927704003965 ATP binding site [chemical binding]; other site 927704003966 Mg2+ binding site [ion binding]; other site 927704003967 G-X-G motif; other site 927704003968 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 927704003969 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704003970 active site 927704003971 phosphorylation site [posttranslational modification] 927704003972 intermolecular recognition site; other site 927704003973 dimerization interface [polypeptide binding]; other site 927704003974 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 927704003975 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 927704003976 putative ligand binding site [chemical binding]; other site 927704003977 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704003978 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 927704003979 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704003980 active site 927704003981 phosphorylation site [posttranslational modification] 927704003982 intermolecular recognition site; other site 927704003983 dimerization interface [polypeptide binding]; other site 927704003984 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 927704003985 Zn2+ binding site [ion binding]; other site 927704003986 Mg2+ binding site [ion binding]; other site 927704003987 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 927704003988 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 927704003989 putative efflux protein, MATE family; Region: matE; TIGR00797 927704003990 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 927704003991 Cache domain; Region: Cache_1; pfam02743 927704003992 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 927704003993 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 927704003994 dimerization interface [polypeptide binding]; other site 927704003995 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 927704003996 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 927704003997 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 927704003998 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 927704003999 Condensation domain; Region: Condensation; pfam00668 927704004000 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 927704004001 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 927704004002 anti sigma factor interaction site; other site 927704004003 regulatory phosphorylation site [posttranslational modification]; other site 927704004004 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 927704004005 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 927704004006 dimer interface [polypeptide binding]; other site 927704004007 ADP-ribose binding site [chemical binding]; other site 927704004008 active site 927704004009 nudix motif; other site 927704004010 metal binding site [ion binding]; metal-binding site 927704004011 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 927704004012 Peptidase family M50; Region: Peptidase_M50; pfam02163 927704004013 active site 927704004014 putative substrate binding region [chemical binding]; other site 927704004015 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 927704004016 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 927704004017 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 927704004018 Peptidase family U32; Region: Peptidase_U32; pfam01136 927704004019 Collagenase; Region: DUF3656; pfam12392 927704004020 Peptidase family U32; Region: Peptidase_U32; pfam01136 927704004021 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 927704004022 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 927704004023 active site 927704004024 Int/Topo IB signature motif; other site 927704004025 DNA binding site [nucleotide binding] 927704004026 S-adenosylmethionine synthetase; Validated; Region: PRK05250 927704004027 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 927704004028 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 927704004029 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 927704004030 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 927704004031 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 927704004032 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 927704004033 DNA binding residues [nucleotide binding] 927704004034 signal recognition particle protein; Provisional; Region: PRK10867 927704004035 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 927704004036 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 927704004037 P loop; other site 927704004038 GTP binding site [chemical binding]; other site 927704004039 Signal peptide binding domain; Region: SRP_SPB; pfam02978 927704004040 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 927704004041 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 927704004042 hypothetical protein; Provisional; Region: PRK00468 927704004043 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 927704004044 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 927704004045 RimM N-terminal domain; Region: RimM; pfam01782 927704004046 PRC-barrel domain; Region: PRC; pfam05239 927704004047 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 927704004048 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 927704004049 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 927704004050 substrate binding site; other site 927704004051 tetramer interface; other site 927704004052 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 927704004053 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 927704004054 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 927704004055 NAD binding site [chemical binding]; other site 927704004056 substrate binding site [chemical binding]; other site 927704004057 homodimer interface [polypeptide binding]; other site 927704004058 active site 927704004059 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 927704004060 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 927704004061 generic binding surface II; other site 927704004062 generic binding surface I; other site 927704004063 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 927704004064 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 927704004065 active site 927704004066 putative PHP Thumb interface [polypeptide binding]; other site 927704004067 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 927704004068 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 927704004069 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 927704004070 N-acetyl-D-glucosamine binding site [chemical binding]; other site 927704004071 catalytic residue [active] 927704004072 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 927704004073 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 927704004074 CoA-binding site [chemical binding]; other site 927704004075 ATP-binding [chemical binding]; other site 927704004076 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 927704004077 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 927704004078 DNA binding site [nucleotide binding] 927704004079 catalytic residue [active] 927704004080 H2TH interface [polypeptide binding]; other site 927704004081 putative catalytic residues [active] 927704004082 turnover-facilitating residue; other site 927704004083 intercalation triad [nucleotide binding]; other site 927704004084 8OG recognition residue [nucleotide binding]; other site 927704004085 putative reading head residues; other site 927704004086 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 927704004087 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 927704004088 DNA polymerase I; Provisional; Region: PRK05755 927704004089 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 927704004090 active site 927704004091 metal binding site 1 [ion binding]; metal-binding site 927704004092 putative 5' ssDNA interaction site; other site 927704004093 metal binding site 3; metal-binding site 927704004094 metal binding site 2 [ion binding]; metal-binding site 927704004095 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 927704004096 putative DNA binding site [nucleotide binding]; other site 927704004097 putative metal binding site [ion binding]; other site 927704004098 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 927704004099 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 927704004100 active site 927704004101 DNA binding site [nucleotide binding] 927704004102 catalytic site [active] 927704004103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 927704004104 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 927704004105 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 927704004106 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 927704004107 motif II; other site 927704004108 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 927704004109 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 927704004110 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 927704004111 Peptidase M16C associated; Region: M16C_assoc; pfam08367 927704004112 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 927704004113 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 927704004114 putative ribose interaction site [chemical binding]; other site 927704004115 putative ADP binding site [chemical binding]; other site 927704004116 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 927704004117 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 927704004118 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 927704004119 catalytic residues [active] 927704004120 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 927704004121 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 927704004122 putative active site [active] 927704004123 oxyanion strand; other site 927704004124 catalytic triad [active] 927704004125 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 927704004126 putative active site pocket [active] 927704004127 4-fold oligomerization interface [polypeptide binding]; other site 927704004128 metal binding residues [ion binding]; metal-binding site 927704004129 3-fold/trimer interface [polypeptide binding]; other site 927704004130 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 927704004131 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 927704004132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704004133 homodimer interface [polypeptide binding]; other site 927704004134 catalytic residue [active] 927704004135 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 927704004136 histidinol dehydrogenase; Region: hisD; TIGR00069 927704004137 NAD binding site [chemical binding]; other site 927704004138 dimerization interface [polypeptide binding]; other site 927704004139 product binding site; other site 927704004140 substrate binding site [chemical binding]; other site 927704004141 zinc binding site [ion binding]; other site 927704004142 catalytic residues [active] 927704004143 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 927704004144 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 927704004145 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 927704004146 Zn2+ binding site [ion binding]; other site 927704004147 Mg2+ binding site [ion binding]; other site 927704004148 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 927704004149 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 927704004150 dimer interface [polypeptide binding]; other site 927704004151 motif 1; other site 927704004152 active site 927704004153 motif 2; other site 927704004154 motif 3; other site 927704004155 Trp repressor protein; Region: Trp_repressor; cl17266 927704004156 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 927704004157 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 927704004158 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 927704004159 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 927704004160 Major Facilitator Superfamily; Region: MFS_1; pfam07690 927704004161 putative substrate translocation pore; other site 927704004162 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 927704004163 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 927704004164 HlyD family secretion protein; Region: HlyD_3; pfam13437 927704004165 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 927704004166 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 927704004167 motif 1; other site 927704004168 active site 927704004169 motif 2; other site 927704004170 motif 3; other site 927704004171 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 927704004172 Uncharacterized conserved protein [Function unknown]; Region: COG2968 927704004173 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 927704004174 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 927704004175 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 927704004176 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 927704004177 active site 927704004178 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 927704004179 Dehydroquinase class II; Region: DHquinase_II; pfam01220 927704004180 active site 927704004181 trimer interface [polypeptide binding]; other site 927704004182 dimer interface [polypeptide binding]; other site 927704004183 Acylphosphatase; Region: Acylphosphatase; pfam00708 927704004184 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 927704004185 Peptidase family U32; Region: Peptidase_U32; pfam01136 927704004186 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 927704004187 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 927704004188 S-adenosylmethionine binding site [chemical binding]; other site 927704004189 YceG-like family; Region: YceG; pfam02618 927704004190 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 927704004191 dimerization interface [polypeptide binding]; other site 927704004192 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 927704004193 hypothetical protein; Provisional; Region: PRK05473 927704004194 aspartate aminotransferase; Provisional; Region: PRK06836 927704004195 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 927704004196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704004197 homodimer interface [polypeptide binding]; other site 927704004198 catalytic residue [active] 927704004199 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 927704004200 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 927704004201 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 927704004202 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 927704004203 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 927704004204 G1 box; other site 927704004205 GTP/Mg2+ binding site [chemical binding]; other site 927704004206 Switch I region; other site 927704004207 G2 box; other site 927704004208 G3 box; other site 927704004209 Switch II region; other site 927704004210 G4 box; other site 927704004211 G5 box; other site 927704004212 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 927704004213 Found in ATP-dependent protease La (LON); Region: LON; smart00464 927704004214 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 927704004215 Walker A motif; other site 927704004216 ATP binding site [chemical binding]; other site 927704004217 Walker B motif; other site 927704004218 arginine finger; other site 927704004219 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 927704004220 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 927704004221 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 927704004222 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 927704004223 Walker A motif; other site 927704004224 ATP binding site [chemical binding]; other site 927704004225 Walker B motif; other site 927704004226 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 927704004227 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 927704004228 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 927704004229 oligomer interface [polypeptide binding]; other site 927704004230 active site residues [active] 927704004231 trigger factor; Provisional; Region: tig; PRK01490 927704004232 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 927704004233 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 927704004234 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 927704004235 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 927704004236 G1 box; other site 927704004237 putative GEF interaction site [polypeptide binding]; other site 927704004238 GTP/Mg2+ binding site [chemical binding]; other site 927704004239 Switch I region; other site 927704004240 G2 box; other site 927704004241 G3 box; other site 927704004242 Switch II region; other site 927704004243 G4 box; other site 927704004244 G5 box; other site 927704004245 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 927704004246 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 927704004247 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 927704004248 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 927704004249 Cache domain; Region: Cache_1; pfam02743 927704004250 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 927704004251 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 927704004252 dimerization interface [polypeptide binding]; other site 927704004253 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 927704004254 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 927704004255 Acylphosphatase; Region: Acylphosphatase; pfam00708 927704004256 HypF finger; Region: zf-HYPF; pfam07503 927704004257 HypF finger; Region: zf-HYPF; pfam07503 927704004258 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 927704004259 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 927704004260 Ligand Binding Site [chemical binding]; other site 927704004261 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 927704004262 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 927704004263 RNase E interface [polypeptide binding]; other site 927704004264 trimer interface [polypeptide binding]; other site 927704004265 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 927704004266 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 927704004267 RNase E interface [polypeptide binding]; other site 927704004268 trimer interface [polypeptide binding]; other site 927704004269 active site 927704004270 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 927704004271 putative nucleic acid binding region [nucleotide binding]; other site 927704004272 G-X-X-G motif; other site 927704004273 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 927704004274 RNA binding site [nucleotide binding]; other site 927704004275 domain interface; other site 927704004276 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 927704004277 16S/18S rRNA binding site [nucleotide binding]; other site 927704004278 S13e-L30e interaction site [polypeptide binding]; other site 927704004279 25S rRNA binding site [nucleotide binding]; other site 927704004280 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 927704004281 MutS domain III; Region: MutS_III; pfam05192 927704004282 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 927704004283 Walker A/P-loop; other site 927704004284 ATP binding site [chemical binding]; other site 927704004285 Q-loop/lid; other site 927704004286 ABC transporter signature motif; other site 927704004287 Walker B; other site 927704004288 D-loop; other site 927704004289 H-loop/switch region; other site 927704004290 Smr domain; Region: Smr; pfam01713 927704004291 Uncharacterized conserved protein [Function unknown]; Region: COG0062 927704004292 putative carbohydrate kinase; Provisional; Region: PRK10565 927704004293 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 927704004294 putative substrate binding site [chemical binding]; other site 927704004295 putative ATP binding site [chemical binding]; other site 927704004296 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 927704004297 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 927704004298 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 927704004299 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 927704004300 ligand binding site [chemical binding]; other site 927704004301 flagellar motor protein MotA; Validated; Region: PRK08124 927704004302 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 927704004303 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704004304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704004305 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 927704004306 dimerization interface [polypeptide binding]; other site 927704004307 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 927704004308 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 927704004309 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 927704004310 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 927704004311 dimer interface [polypeptide binding]; other site 927704004312 substrate binding site [chemical binding]; other site 927704004313 metal binding site [ion binding]; metal-binding site 927704004314 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 927704004315 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 927704004316 Walker A; other site 927704004317 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 927704004318 B12 binding site [chemical binding]; other site 927704004319 cobalt ligand [ion binding]; other site 927704004320 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 927704004321 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 927704004322 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 927704004323 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 927704004324 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 927704004325 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 927704004326 intersubunit interface [polypeptide binding]; other site 927704004327 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 927704004328 Flavoprotein; Region: Flavoprotein; pfam02441 927704004329 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 927704004330 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 927704004331 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 927704004332 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 927704004333 catalytic site [active] 927704004334 G-X2-G-X-G-K; other site 927704004335 hypothetical protein; Provisional; Region: PRK04323 927704004336 hypothetical protein; Provisional; Region: PRK11820 927704004337 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 927704004338 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 927704004339 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 927704004340 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 927704004341 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 927704004342 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 927704004343 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 927704004344 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 927704004345 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 927704004346 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 927704004347 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 927704004348 metal binding site [ion binding]; metal-binding site 927704004349 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 927704004350 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 927704004351 substrate binding site [chemical binding]; other site 927704004352 glutamase interaction surface [polypeptide binding]; other site 927704004353 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 927704004354 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 927704004355 Walker A/P-loop; other site 927704004356 ATP binding site [chemical binding]; other site 927704004357 Q-loop/lid; other site 927704004358 ABC transporter signature motif; other site 927704004359 Walker B; other site 927704004360 D-loop; other site 927704004361 H-loop/switch region; other site 927704004362 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 927704004363 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704004364 dimer interface [polypeptide binding]; other site 927704004365 conserved gate region; other site 927704004366 putative PBP binding loops; other site 927704004367 ABC-ATPase subunit interface; other site 927704004368 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 927704004369 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 927704004370 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 927704004371 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 927704004372 hexokinase; Provisional; Region: PTZ00107 927704004373 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 927704004374 nucleotide binding site [chemical binding]; other site 927704004375 Hexokinase; Region: Hexokinase_2; pfam03727 927704004376 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 927704004377 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 927704004378 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 927704004379 ABC transporter; Region: ABC_tran_2; pfam12848 927704004380 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 927704004381 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 927704004382 amino acid carrier protein; Region: agcS; TIGR00835 927704004383 Cache domain; Region: Cache_1; pfam02743 927704004384 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 927704004385 dimerization interface [polypeptide binding]; other site 927704004386 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704004387 dimer interface [polypeptide binding]; other site 927704004388 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704004389 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704004390 dimer interface [polypeptide binding]; other site 927704004391 putative CheW interface [polypeptide binding]; other site 927704004392 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 927704004393 nucleotide binding site/active site [active] 927704004394 HIT family signature motif; other site 927704004395 catalytic residue [active] 927704004396 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 927704004397 Domain of unknown function (DUF814); Region: DUF814; pfam05670 927704004398 Uncharacterized conserved protein [Function unknown]; Region: COG3589 927704004399 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 927704004400 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 927704004401 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 927704004402 putative active site [active] 927704004403 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 927704004404 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 927704004405 active site turn [active] 927704004406 phosphorylation site [posttranslational modification] 927704004407 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 927704004408 recombination factor protein RarA; Reviewed; Region: PRK13342 927704004409 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 927704004410 Walker A motif; other site 927704004411 ATP binding site [chemical binding]; other site 927704004412 Walker B motif; other site 927704004413 arginine finger; other site 927704004414 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 927704004415 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 927704004416 trimer interface [polypeptide binding]; other site 927704004417 active site 927704004418 bacterial Hfq-like; Region: Hfq; cd01716 927704004419 hexamer interface [polypeptide binding]; other site 927704004420 Sm1 motif; other site 927704004421 RNA binding site [nucleotide binding]; other site 927704004422 Sm2 motif; other site 927704004423 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 927704004424 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 927704004425 nucleotide binding pocket [chemical binding]; other site 927704004426 K-X-D-G motif; other site 927704004427 catalytic site [active] 927704004428 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 927704004429 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 927704004430 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 927704004431 Dimer interface [polypeptide binding]; other site 927704004432 BRCT sequence motif; other site 927704004433 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 927704004434 Part of AAA domain; Region: AAA_19; pfam13245 927704004435 Family description; Region: UvrD_C_2; pfam13538 927704004436 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 927704004437 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 927704004438 DRTGG domain; Region: DRTGG; pfam07085 927704004439 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 927704004440 DHH family; Region: DHH; pfam01368 927704004441 DHHA2 domain; Region: DHHA2; pfam02833 927704004442 Global regulator protein family; Region: CsrA; pfam02599 927704004443 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 927704004444 active site 927704004445 multimer interface [polypeptide binding]; other site 927704004446 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 927704004447 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 927704004448 trimer interface [polypeptide binding]; other site 927704004449 putative metal binding site [ion binding]; other site 927704004450 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 927704004451 Domain of unknown function DUF21; Region: DUF21; pfam01595 927704004452 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 927704004453 Transporter associated domain; Region: CorC_HlyC; smart01091 927704004454 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 927704004455 S-adenosylmethionine binding site [chemical binding]; other site 927704004456 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 927704004457 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 927704004458 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 927704004459 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 927704004460 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 927704004461 G1 box; other site 927704004462 GTP/Mg2+ binding site [chemical binding]; other site 927704004463 Switch I region; other site 927704004464 G2 box; other site 927704004465 G3 box; other site 927704004466 Switch II region; other site 927704004467 G4 box; other site 927704004468 G5 box; other site 927704004469 Nucleoside recognition; Region: Gate; pfam07670 927704004470 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 927704004471 Nucleoside recognition; Region: Gate; pfam07670 927704004472 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 927704004473 Transposase domain (DUF772); Region: DUF772; pfam05598 927704004474 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 927704004475 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 927704004476 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 927704004477 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 927704004478 active site 927704004479 Riboflavin kinase; Region: Flavokinase; pfam01687 927704004480 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 927704004481 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 927704004482 RNA binding site [nucleotide binding]; other site 927704004483 active site 927704004484 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 927704004485 DHH family; Region: DHH; pfam01368 927704004486 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 927704004487 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 927704004488 translation initiation factor IF-2; Region: IF-2; TIGR00487 927704004489 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 927704004490 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 927704004491 G1 box; other site 927704004492 putative GEF interaction site [polypeptide binding]; other site 927704004493 GTP/Mg2+ binding site [chemical binding]; other site 927704004494 Switch I region; other site 927704004495 G2 box; other site 927704004496 G3 box; other site 927704004497 Switch II region; other site 927704004498 G4 box; other site 927704004499 G5 box; other site 927704004500 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 927704004501 Translation-initiation factor 2; Region: IF-2; pfam11987 927704004502 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 927704004503 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 927704004504 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 927704004505 putative RNA binding cleft [nucleotide binding]; other site 927704004506 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 927704004507 NusA N-terminal domain; Region: NusA_N; pfam08529 927704004508 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 927704004509 RNA binding site [nucleotide binding]; other site 927704004510 homodimer interface [polypeptide binding]; other site 927704004511 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 927704004512 G-X-X-G motif; other site 927704004513 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 927704004514 G-X-X-G motif; other site 927704004515 ribosome maturation protein RimP; Reviewed; Region: PRK00092 927704004516 Sm and related proteins; Region: Sm_like; cl00259 927704004517 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 927704004518 putative oligomer interface [polypeptide binding]; other site 927704004519 putative RNA binding site [nucleotide binding]; other site 927704004520 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 927704004521 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 927704004522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704004523 homodimer interface [polypeptide binding]; other site 927704004524 catalytic residue [active] 927704004525 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 927704004526 B12 binding domain; Region: B12-binding; pfam02310 927704004527 B12 binding site [chemical binding]; other site 927704004528 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 927704004529 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 927704004530 FeS/SAM binding site; other site 927704004531 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 927704004532 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 927704004533 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 927704004534 metal binding site [ion binding]; metal-binding site 927704004535 dimer interface [polypeptide binding]; other site 927704004536 Protein of unknown function (DUF552); Region: DUF552; pfam04472 927704004537 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 927704004538 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 927704004539 G1 box; other site 927704004540 putative GEF interaction site [polypeptide binding]; other site 927704004541 GTP/Mg2+ binding site [chemical binding]; other site 927704004542 Switch I region; other site 927704004543 G2 box; other site 927704004544 G3 box; other site 927704004545 Switch II region; other site 927704004546 G4 box; other site 927704004547 G5 box; other site 927704004548 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 927704004549 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 927704004550 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 927704004551 active site 927704004552 putative catalytic site [active] 927704004553 DNA binding site [nucleotide binding] 927704004554 putative phosphate binding site [ion binding]; other site 927704004555 metal binding site A [ion binding]; metal-binding site 927704004556 AP binding site [nucleotide binding]; other site 927704004557 metal binding site B [ion binding]; metal-binding site 927704004558 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 927704004559 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 927704004560 Catalytic site [active] 927704004561 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 927704004562 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 927704004563 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 927704004564 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 927704004565 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 927704004566 hydrogenase 4 subunit F; Validated; Region: PRK06458 927704004567 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 927704004568 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 927704004569 NADH dehydrogenase; Region: NADHdh; cl00469 927704004570 hydrogenase 4 subunit B; Validated; Region: PRK06521 927704004571 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 927704004572 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 927704004573 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 927704004574 dimer interface [polypeptide binding]; other site 927704004575 active site 927704004576 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 927704004577 catalytic residues [active] 927704004578 substrate binding site [chemical binding]; other site 927704004579 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 927704004580 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 927704004581 DNA binding site [nucleotide binding] 927704004582 dimer interface [polypeptide binding]; other site 927704004583 active site 927704004584 Int/Topo IB signature motif; other site 927704004585 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 927704004586 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 927704004587 PYR/PP interface [polypeptide binding]; other site 927704004588 dimer interface [polypeptide binding]; other site 927704004589 TPP binding site [chemical binding]; other site 927704004590 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 927704004591 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 927704004592 TPP-binding site [chemical binding]; other site 927704004593 dimer interface [polypeptide binding]; other site 927704004594 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 927704004595 tartrate dehydrogenase; Region: TTC; TIGR02089 927704004596 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 927704004597 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 927704004598 substrate binding site [chemical binding]; other site 927704004599 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 927704004600 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 927704004601 substrate binding site [chemical binding]; other site 927704004602 ligand binding site [chemical binding]; other site 927704004603 ketol-acid reductoisomerase; Provisional; Region: PRK05479 927704004604 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 927704004605 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 927704004606 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 927704004607 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 927704004608 putative valine binding site [chemical binding]; other site 927704004609 dimer interface [polypeptide binding]; other site 927704004610 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 927704004611 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 927704004612 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 927704004613 minor groove reading motif; other site 927704004614 helix-hairpin-helix signature motif; other site 927704004615 substrate binding pocket [chemical binding]; other site 927704004616 active site 927704004617 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 927704004618 DNA binding and oxoG recognition site [nucleotide binding] 927704004619 FIST N domain; Region: FIST; smart00897 927704004620 Uncharacterized conserved protein [Function unknown]; Region: COG3287 927704004621 FIST C domain; Region: FIST_C; pfam10442 927704004622 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 927704004623 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704004624 dimer interface [polypeptide binding]; other site 927704004625 putative CheW interface [polypeptide binding]; other site 927704004626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704004627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704004628 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 927704004629 dimerization interface [polypeptide binding]; other site 927704004630 DNA repair protein RadA; Provisional; Region: PRK11823 927704004631 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 927704004632 Walker A motif/ATP binding site; other site 927704004633 ATP binding site [chemical binding]; other site 927704004634 Walker B motif; other site 927704004635 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 927704004636 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 927704004637 Clp amino terminal domain; Region: Clp_N; pfam02861 927704004638 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 927704004639 Walker A motif; other site 927704004640 ATP binding site [chemical binding]; other site 927704004641 Walker B motif; other site 927704004642 arginine finger; other site 927704004643 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 927704004644 Walker A motif; other site 927704004645 ATP binding site [chemical binding]; other site 927704004646 Walker B motif; other site 927704004647 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 927704004648 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 927704004649 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 927704004650 ADP binding site [chemical binding]; other site 927704004651 phosphagen binding site; other site 927704004652 substrate specificity loop; other site 927704004653 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 927704004654 UvrB/uvrC motif; Region: UVR; pfam02151 927704004655 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 927704004656 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 927704004657 substrate binding site [chemical binding]; other site 927704004658 amidase catalytic site [active] 927704004659 Zn binding residues [ion binding]; other site 927704004660 Holin family; Region: Phage_holin_4; pfam05105 927704004661 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 927704004662 active site 927704004663 DNA binding site [nucleotide binding] 927704004664 Int/Topo IB signature motif; other site 927704004665 H-type lectin domain; Region: H_lectin; pfam09458 927704004666 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 927704004667 Baseplate J-like protein; Region: Baseplate_J; pfam04865 927704004668 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 927704004669 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 927704004670 Uncharacterized conserved protein [Function unknown]; Region: COG4104 927704004671 Transposase; Region: HTH_Tnp_1; cl17663 927704004672 putative transposase OrfB; Reviewed; Region: PHA02517 927704004673 HTH-like domain; Region: HTH_21; pfam13276 927704004674 Integrase core domain; Region: rve; pfam00665 927704004675 Integrase core domain; Region: rve_3; pfam13683 927704004676 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 927704004677 non-specific DNA binding site [nucleotide binding]; other site 927704004678 salt bridge; other site 927704004679 sequence-specific DNA binding site [nucleotide binding]; other site 927704004680 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704004681 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 927704004682 non-specific DNA binding site [nucleotide binding]; other site 927704004683 salt bridge; other site 927704004684 sequence-specific DNA binding site [nucleotide binding]; other site 927704004685 Helix-turn-helix domain; Region: HTH_19; pfam12844 927704004686 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 927704004687 Uncharacterized conserved protein [Function unknown]; Region: COG4127 927704004688 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 927704004689 Abi-like protein; Region: Abi_2; pfam07751 927704004690 Resolvase, N terminal domain; Region: Resolvase; pfam00239 927704004691 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 927704004692 catalytic residues [active] 927704004693 Recombinase; Region: Recombinase; pfam07508 927704004694 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 927704004695 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 927704004696 active site 927704004697 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 927704004698 active site 927704004699 dimer interface [polypeptide binding]; other site 927704004700 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 927704004701 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 927704004702 heterodimer interface [polypeptide binding]; other site 927704004703 active site 927704004704 FMN binding site [chemical binding]; other site 927704004705 homodimer interface [polypeptide binding]; other site 927704004706 substrate binding site [chemical binding]; other site 927704004707 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 927704004708 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 927704004709 FAD binding pocket [chemical binding]; other site 927704004710 FAD binding motif [chemical binding]; other site 927704004711 phosphate binding motif [ion binding]; other site 927704004712 beta-alpha-beta structure motif; other site 927704004713 NAD binding pocket [chemical binding]; other site 927704004714 Iron coordination center [ion binding]; other site 927704004715 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 927704004716 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 927704004717 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 927704004718 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 927704004719 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 927704004720 ATP-grasp domain; Region: ATP-grasp_4; cl17255 927704004721 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 927704004722 IMP binding site; other site 927704004723 dimer interface [polypeptide binding]; other site 927704004724 interdomain contacts; other site 927704004725 partial ornithine binding site; other site 927704004726 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 927704004727 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 927704004728 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 927704004729 catalytic site [active] 927704004730 subunit interface [polypeptide binding]; other site 927704004731 dihydroorotase; Validated; Region: pyrC; PRK09357 927704004732 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 927704004733 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 927704004734 active site 927704004735 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 927704004736 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 927704004737 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 927704004738 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 927704004739 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 927704004740 putative [4Fe-4S] binding site [ion binding]; other site 927704004741 putative molybdopterin cofactor binding site [chemical binding]; other site 927704004742 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 927704004743 molybdopterin cofactor binding site; other site 927704004744 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 927704004745 hypothetical protein; Provisional; Region: PRK07236 927704004746 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 927704004747 YbbR-like protein; Region: YbbR; pfam07949 927704004748 Uncharacterized conserved protein [Function unknown]; Region: COG1624 927704004749 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 927704004750 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 927704004751 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 927704004752 homodimer interface [polypeptide binding]; other site 927704004753 substrate-cofactor binding pocket; other site 927704004754 catalytic residue [active] 927704004755 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 927704004756 6-phosphogluconate dehydratase; Region: edd; TIGR01196 927704004757 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 927704004758 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 927704004759 homodimer interface [polypeptide binding]; other site 927704004760 Walker A motif; other site 927704004761 ATP binding site [chemical binding]; other site 927704004762 hydroxycobalamin binding site [chemical binding]; other site 927704004763 Walker B motif; other site 927704004764 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 927704004765 active site 927704004766 catalytic triad [active] 927704004767 oxyanion hole [active] 927704004768 FAD binding domain; Region: FAD_binding_4; pfam01565 927704004769 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 927704004770 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 927704004771 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 927704004772 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 927704004773 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 927704004774 Ligand binding site [chemical binding]; other site 927704004775 Electron transfer flavoprotein domain; Region: ETF; pfam01012 927704004776 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 927704004777 Acyltransferase family; Region: Acyl_transf_3; pfam01757 927704004778 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 927704004779 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 927704004780 Walker A/P-loop; other site 927704004781 ATP binding site [chemical binding]; other site 927704004782 Q-loop/lid; other site 927704004783 ABC transporter signature motif; other site 927704004784 Walker B; other site 927704004785 D-loop; other site 927704004786 H-loop/switch region; other site 927704004787 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 927704004788 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 927704004789 ABC-ATPase subunit interface; other site 927704004790 dimer interface [polypeptide binding]; other site 927704004791 putative PBP binding regions; other site 927704004792 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 927704004793 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 927704004794 intersubunit interface [polypeptide binding]; other site 927704004795 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 927704004796 active site 927704004797 SAM binding site [chemical binding]; other site 927704004798 homodimer interface [polypeptide binding]; other site 927704004799 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 927704004800 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 927704004801 active site 927704004802 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 927704004803 active site 927704004804 N-terminal domain interface [polypeptide binding]; other site 927704004805 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 927704004806 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 927704004807 dimer interface [polypeptide binding]; other site 927704004808 putative anticodon binding site; other site 927704004809 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 927704004810 motif 1; other site 927704004811 active site 927704004812 motif 2; other site 927704004813 motif 3; other site 927704004814 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 927704004815 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 927704004816 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 927704004817 glutamine synthetase, type I; Region: GlnA; TIGR00653 927704004818 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 927704004819 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 927704004820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 927704004821 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 927704004822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704004823 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 927704004824 Probable transposase; Region: OrfB_IS605; pfam01385 927704004825 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704004826 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 927704004827 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 927704004828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 927704004829 NAD(P) binding site [chemical binding]; other site 927704004830 active site 927704004831 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 927704004832 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 927704004833 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 927704004834 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 927704004835 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 927704004836 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 927704004837 NAD binding site [chemical binding]; other site 927704004838 substrate binding site [chemical binding]; other site 927704004839 homodimer interface [polypeptide binding]; other site 927704004840 active site 927704004841 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 927704004842 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 927704004843 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 927704004844 substrate binding site; other site 927704004845 tetramer interface; other site 927704004846 Caspase domain; Region: Peptidase_C14; pfam00656 927704004847 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 927704004848 phosphomannomutase CpsG; Provisional; Region: PRK15414 927704004849 active site 927704004850 substrate binding site [chemical binding]; other site 927704004851 metal binding site [ion binding]; metal-binding site 927704004852 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 927704004853 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 927704004854 NADP binding site [chemical binding]; other site 927704004855 active site 927704004856 putative substrate binding site [chemical binding]; other site 927704004857 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 927704004858 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 927704004859 active site 927704004860 Cupin domain; Region: Cupin_2; cl17218 927704004861 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 927704004862 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 927704004863 NADP-binding site; other site 927704004864 homotetramer interface [polypeptide binding]; other site 927704004865 substrate binding site [chemical binding]; other site 927704004866 homodimer interface [polypeptide binding]; other site 927704004867 active site 927704004868 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 927704004869 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 927704004870 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 927704004871 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 927704004872 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 927704004873 Probable Catalytic site; other site 927704004874 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 927704004875 metal binding triad [ion binding]; metal-binding site 927704004876 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 927704004877 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 927704004878 active site 927704004879 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 927704004880 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 927704004881 homodimer interface [polypeptide binding]; other site 927704004882 substrate-cofactor binding pocket; other site 927704004883 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704004884 catalytic residue [active] 927704004885 Bacterial sugar transferase; Region: Bac_transf; pfam02397 927704004886 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 927704004887 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 927704004888 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 927704004889 catalytic residue [active] 927704004890 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 927704004891 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 927704004892 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 927704004893 NAD(P) binding site [chemical binding]; other site 927704004894 homodimer interface [polypeptide binding]; other site 927704004895 substrate binding site [chemical binding]; other site 927704004896 active site 927704004897 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 927704004898 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 927704004899 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 927704004900 Chain length determinant protein; Region: Wzz; pfam02706 927704004901 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 927704004902 Chain length determinant protein; Region: Wzz; cl15801 927704004903 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 927704004904 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 927704004905 SLBB domain; Region: SLBB; pfam10531 927704004906 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 927704004907 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 927704004908 active site 927704004909 putative homodimer interface [polypeptide binding]; other site 927704004910 SAM binding site [chemical binding]; other site 927704004911 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704004912 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 927704004913 Probable transposase; Region: OrfB_IS605; pfam01385 927704004914 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704004915 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 927704004916 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 927704004917 DNA binding residues [nucleotide binding] 927704004918 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 927704004919 catalytic residues [active] 927704004920 catalytic nucleophile [active] 927704004921 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 927704004922 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 927704004923 putative GTP cyclohydrolase; Provisional; Region: PRK13674 927704004924 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 927704004925 Ligand Binding Site [chemical binding]; other site 927704004926 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 927704004927 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 927704004928 substrate binding site [chemical binding]; other site 927704004929 hexamer interface [polypeptide binding]; other site 927704004930 metal binding site [ion binding]; metal-binding site 927704004931 GTPase RsgA; Reviewed; Region: PRK00098 927704004932 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 927704004933 RNA binding site [nucleotide binding]; other site 927704004934 homodimer interface [polypeptide binding]; other site 927704004935 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 927704004936 GTPase/Zn-binding domain interface [polypeptide binding]; other site 927704004937 GTP/Mg2+ binding site [chemical binding]; other site 927704004938 G4 box; other site 927704004939 G5 box; other site 927704004940 G1 box; other site 927704004941 Switch I region; other site 927704004942 G2 box; other site 927704004943 G3 box; other site 927704004944 Switch II region; other site 927704004945 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 927704004946 Catalytic domain of Protein Kinases; Region: PKc; cd00180 927704004947 active site 927704004948 ATP binding site [chemical binding]; other site 927704004949 substrate binding site [chemical binding]; other site 927704004950 activation loop (A-loop); other site 927704004951 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 927704004952 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 927704004953 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 927704004954 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 927704004955 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 927704004956 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 927704004957 Protein phosphatase 2C; Region: PP2C; pfam00481 927704004958 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 927704004959 active site 927704004960 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 927704004961 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 927704004962 phosphopeptide binding site; other site 927704004963 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 927704004964 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 927704004965 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 927704004966 phosphopeptide binding site; other site 927704004967 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 927704004968 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 927704004969 FeS/SAM binding site; other site 927704004970 16S rRNA methyltransferase B; Provisional; Region: PRK14902 927704004971 NusB family; Region: NusB; pfam01029 927704004972 putative RNA binding site [nucleotide binding]; other site 927704004973 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 927704004974 S-adenosylmethionine binding site [chemical binding]; other site 927704004975 Protein of unknown function DUF116; Region: DUF116; pfam01976 927704004976 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 927704004977 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 927704004978 putative active site [active] 927704004979 substrate binding site [chemical binding]; other site 927704004980 putative cosubstrate binding site; other site 927704004981 catalytic site [active] 927704004982 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 927704004983 substrate binding site [chemical binding]; other site 927704004984 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 927704004985 active site 927704004986 catalytic residues [active] 927704004987 metal binding site [ion binding]; metal-binding site 927704004988 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 927704004989 peptidase T; Region: peptidase-T; TIGR01882 927704004990 metal binding site [ion binding]; metal-binding site 927704004991 dimer interface [polypeptide binding]; other site 927704004992 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 927704004993 Cysteine-rich domain; Region: CCG; pfam02754 927704004994 Cysteine-rich domain; Region: CCG; pfam02754 927704004995 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 927704004996 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 927704004997 catalytic loop [active] 927704004998 iron binding site [ion binding]; other site 927704004999 L-aspartate oxidase; Provisional; Region: PRK06175 927704005000 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 927704005001 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 927704005002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704005003 Probable transposase; Region: OrfB_IS605; pfam01385 927704005004 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704005005 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 927704005006 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 927704005007 DNA binding residues [nucleotide binding] 927704005008 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 927704005009 catalytic residues [active] 927704005010 catalytic nucleophile [active] 927704005011 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704005012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704005013 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 927704005014 dimerization interface [polypeptide binding]; other site 927704005015 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 927704005016 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 927704005017 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 927704005018 substrate binding pocket [chemical binding]; other site 927704005019 chain length determination region; other site 927704005020 substrate-Mg2+ binding site; other site 927704005021 catalytic residues [active] 927704005022 aspartate-rich region 1; other site 927704005023 active site lid residues [active] 927704005024 aspartate-rich region 2; other site 927704005025 NAD synthetase; Provisional; Region: PRK13981 927704005026 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 927704005027 multimer interface [polypeptide binding]; other site 927704005028 active site 927704005029 catalytic triad [active] 927704005030 protein interface 1 [polypeptide binding]; other site 927704005031 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 927704005032 Ligand Binding Site [chemical binding]; other site 927704005033 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 927704005034 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 927704005035 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 927704005036 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 927704005037 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 927704005038 Walker A motif; other site 927704005039 ATP binding site [chemical binding]; other site 927704005040 Walker B motif; other site 927704005041 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 927704005042 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 927704005043 nucleotide binding site [chemical binding]; other site 927704005044 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 927704005045 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 927704005046 metal-binding site [ion binding] 927704005047 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 927704005048 Soluble P-type ATPase [General function prediction only]; Region: COG4087 927704005049 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 927704005050 metal-binding site [ion binding] 927704005051 C-terminal domain of Faecalibacterium prausnitzii A2-165 FrmR , and related domains; this domain family was previously known as part of DUF156; Region: FpFrmR-Cterm-like_DUF156; cd10156 927704005052 putative homodimer interface [polypeptide binding]; other site 927704005053 putative homotetramer interface [polypeptide binding]; other site 927704005054 putative allosteric switch controlling residues; other site 927704005055 putative metal binding site [ion binding]; other site 927704005056 putative homodimer-homodimer interface [polypeptide binding]; other site 927704005057 Type II/IV secretion system protein; Region: T2SE; pfam00437 927704005058 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 927704005059 Walker A motif; other site 927704005060 ATP binding site [chemical binding]; other site 927704005061 Walker B motif; other site 927704005062 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 927704005063 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 927704005064 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 927704005065 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 927704005066 Uncharacterized conserved protein [Function unknown]; Region: COG0398 927704005067 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 927704005068 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 927704005069 active site 927704005070 metal binding site [ion binding]; metal-binding site 927704005071 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 927704005072 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 927704005073 Cl binding site [ion binding]; other site 927704005074 oligomer interface [polypeptide binding]; other site 927704005075 Cache domain; Region: Cache_1; pfam02743 927704005076 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 927704005077 dimerization interface [polypeptide binding]; other site 927704005078 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704005079 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704005080 dimer interface [polypeptide binding]; other site 927704005081 putative CheW interface [polypeptide binding]; other site 927704005082 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 927704005083 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 927704005084 MPN+ (JAMM) motif; other site 927704005085 Zinc-binding site [ion binding]; other site 927704005086 GTPase-activating protein [General function prediction only]; Region: COG5210 927704005087 Class I aldolases; Region: Aldolase_Class_I; cl17187 927704005088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 927704005089 RelB antitoxin; Region: RelB; cl01171 927704005090 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 927704005091 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 927704005092 active site 927704005093 metal binding site [ion binding]; metal-binding site 927704005094 Holin family; Region: Phage_holin_4; pfam05105 927704005095 Phage-related minor tail protein [Function unknown]; Region: COG5280 927704005096 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 927704005097 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 927704005098 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 927704005099 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 927704005100 Phage capsid family; Region: Phage_capsid; pfam05065 927704005101 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 927704005102 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 927704005103 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 927704005104 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 927704005105 active site 927704005106 AAA domain; Region: AAA_17; pfam13207 927704005107 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 927704005108 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 927704005109 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 927704005110 DNA binding residues [nucleotide binding] 927704005111 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 927704005112 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 927704005113 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 927704005114 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 927704005115 UDP-galactopyranose mutase; Region: GLF; pfam03275 927704005116 Endodeoxyribonuclease RusA; Region: RusA; cl01885 927704005117 replicative DNA helicase; Region: DnaB; TIGR00665 927704005118 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 927704005119 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 927704005120 Walker A motif; other site 927704005121 ATP binding site [chemical binding]; other site 927704005122 Walker B motif; other site 927704005123 DNA binding loops [nucleotide binding] 927704005124 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 927704005125 Protein of unknown function (DUF968); Region: DUF968; pfam06147 927704005126 AAA domain; Region: AAA_24; pfam13479 927704005127 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 927704005128 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 927704005129 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704005130 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 927704005131 non-specific DNA binding site [nucleotide binding]; other site 927704005132 salt bridge; other site 927704005133 sequence-specific DNA binding site [nucleotide binding]; other site 927704005134 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 927704005135 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 927704005136 catalytic residues [active] 927704005137 catalytic nucleophile [active] 927704005138 Recombinase; Region: Recombinase; pfam07508 927704005139 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 927704005140 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 927704005141 hypothetical protein; Provisional; Region: PRK07208 927704005142 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 927704005143 GtrA-like protein; Region: GtrA; pfam04138 927704005144 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 927704005145 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 927704005146 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 927704005147 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 927704005148 ATP binding site [chemical binding]; other site 927704005149 Walker A motif; other site 927704005150 hexamer interface [polypeptide binding]; other site 927704005151 Walker B motif; other site 927704005152 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 927704005153 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 927704005154 Response regulator receiver domain; Region: Response_reg; pfam00072 927704005155 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704005156 active site 927704005157 phosphorylation site [posttranslational modification] 927704005158 intermolecular recognition site; other site 927704005159 dimerization interface [polypeptide binding]; other site 927704005160 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 927704005161 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 927704005162 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 927704005163 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 927704005164 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 927704005165 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 927704005166 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 927704005167 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 927704005168 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 927704005169 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 927704005170 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 927704005171 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 927704005172 NlpC/P60 family; Region: NLPC_P60; pfam00877 927704005173 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 927704005174 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 927704005175 putative active site [active] 927704005176 putative metal binding site [ion binding]; other site 927704005177 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 927704005178 active site 927704005179 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 927704005180 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 927704005181 dimerization interface [polypeptide binding]; other site 927704005182 active site 927704005183 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 927704005184 L-aspartate oxidase; Provisional; Region: PRK06175 927704005185 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 927704005186 Quinolinate synthetase A protein; Region: NadA; pfam02445 927704005187 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 927704005188 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 927704005189 23S rRNA interface [nucleotide binding]; other site 927704005190 L3 interface [polypeptide binding]; other site 927704005191 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 927704005192 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 927704005193 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 927704005194 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 927704005195 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 927704005196 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 927704005197 DNA binding residues [nucleotide binding] 927704005198 DNA primase; Validated; Region: dnaG; PRK05667 927704005199 CHC2 zinc finger; Region: zf-CHC2; pfam01807 927704005200 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 927704005201 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 927704005202 active site 927704005203 metal binding site [ion binding]; metal-binding site 927704005204 interdomain interaction site; other site 927704005205 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 927704005206 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 927704005207 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 927704005208 Zn2+ binding site [ion binding]; other site 927704005209 Mg2+ binding site [ion binding]; other site 927704005210 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 927704005211 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 927704005212 FMN binding site [chemical binding]; other site 927704005213 dimer interface [polypeptide binding]; other site 927704005214 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 927704005215 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 927704005216 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 927704005217 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 927704005218 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 927704005219 Ligand Binding Site [chemical binding]; other site 927704005220 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 927704005221 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 927704005222 catalytic residues [active] 927704005223 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 927704005224 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 927704005225 ligand binding site [chemical binding]; other site 927704005226 flexible hinge region; other site 927704005227 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 927704005228 putative switch regulator; other site 927704005229 non-specific DNA interactions [nucleotide binding]; other site 927704005230 DNA binding site [nucleotide binding] 927704005231 sequence specific DNA binding site [nucleotide binding]; other site 927704005232 putative cAMP binding site [chemical binding]; other site 927704005233 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 927704005234 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 927704005235 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 927704005236 active site 927704005237 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 927704005238 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 927704005239 Substrate binding site; other site 927704005240 Mg++ binding site; other site 927704005241 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 927704005242 active site 927704005243 substrate binding site [chemical binding]; other site 927704005244 CoA binding site [chemical binding]; other site 927704005245 Transcriptional regulators [Transcription]; Region: GntR; COG1802 927704005246 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 927704005247 DNA-binding site [nucleotide binding]; DNA binding site 927704005248 FCD domain; Region: FCD; pfam07729 927704005249 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 927704005250 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 927704005251 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 927704005252 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 927704005253 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 927704005254 oligomer interface [polypeptide binding]; other site 927704005255 putative active site [active] 927704005256 metal binding site [ion binding]; metal-binding site 927704005257 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 927704005258 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 927704005259 FMN binding site [chemical binding]; other site 927704005260 active site 927704005261 catalytic residues [active] 927704005262 substrate binding site [chemical binding]; other site 927704005263 pantothenate kinase; Reviewed; Region: PRK13318 927704005264 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 927704005265 dimerization interface [polypeptide binding]; other site 927704005266 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 927704005267 putative Zn2+ binding site [ion binding]; other site 927704005268 putative DNA binding site [nucleotide binding]; other site 927704005269 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 927704005270 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 927704005271 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 927704005272 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 927704005273 Clp amino terminal domain; Region: Clp_N; pfam02861 927704005274 Clp amino terminal domain; Region: Clp_N; pfam02861 927704005275 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 927704005276 Walker A motif; other site 927704005277 ATP binding site [chemical binding]; other site 927704005278 Walker B motif; other site 927704005279 arginine finger; other site 927704005280 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 927704005281 Walker A motif; other site 927704005282 ATP binding site [chemical binding]; other site 927704005283 Walker B motif; other site 927704005284 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 927704005285 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 927704005286 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 927704005287 active site 927704005288 trimer interface [polypeptide binding]; other site 927704005289 allosteric site; other site 927704005290 active site lid [active] 927704005291 hexamer (dimer of trimers) interface [polypeptide binding]; other site 927704005292 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 927704005293 nucleoside/Zn binding site; other site 927704005294 dimer interface [polypeptide binding]; other site 927704005295 catalytic motif [active] 927704005296 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 927704005297 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 927704005298 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 927704005299 active site turn [active] 927704005300 phosphorylation site [posttranslational modification] 927704005301 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 927704005302 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 927704005303 NAD binding site [chemical binding]; other site 927704005304 sugar binding site [chemical binding]; other site 927704005305 divalent metal binding site [ion binding]; other site 927704005306 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 927704005307 dimer interface [polypeptide binding]; other site 927704005308 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 927704005309 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 927704005310 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 927704005311 putative active site [active] 927704005312 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 927704005313 malate dehydrogenase; Reviewed; Region: PRK06223 927704005314 NAD(P) binding site [chemical binding]; other site 927704005315 dimer interface [polypeptide binding]; other site 927704005316 tetramer (dimer of dimers) interface [polypeptide binding]; other site 927704005317 substrate binding site [chemical binding]; other site 927704005318 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 927704005319 Rubredoxin; Region: Rubredoxin; pfam00301 927704005320 iron binding site [ion binding]; other site 927704005321 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 927704005322 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 927704005323 active site 927704005324 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 927704005325 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 927704005326 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 927704005327 GIY-YIG motif/motif A; other site 927704005328 active site 927704005329 catalytic site [active] 927704005330 putative DNA binding site [nucleotide binding]; other site 927704005331 metal binding site [ion binding]; metal-binding site 927704005332 UvrB/uvrC motif; Region: UVR; pfam02151 927704005333 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 927704005334 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 927704005335 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 927704005336 ATP-grasp domain; Region: ATP-grasp_4; cl17255 927704005337 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 927704005338 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 927704005339 active site 927704005340 catalytic residues [active] 927704005341 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 927704005342 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 927704005343 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 927704005344 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 927704005345 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 927704005346 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 927704005347 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 927704005348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 927704005349 DNA-binding site [nucleotide binding]; DNA binding site 927704005350 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 927704005351 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 927704005352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 927704005353 DNA-binding site [nucleotide binding]; DNA binding site 927704005354 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 927704005355 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 927704005356 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 927704005357 beta-galactosidase; Region: BGL; TIGR03356 927704005358 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 927704005359 active site 927704005360 methionine cluster; other site 927704005361 phosphorylation site [posttranslational modification] 927704005362 metal binding site [ion binding]; metal-binding site 927704005363 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 927704005364 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 927704005365 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 927704005366 active site 927704005367 P-loop; other site 927704005368 phosphorylation site [posttranslational modification] 927704005369 S-layer homology domain; Region: SLH; pfam00395 927704005370 S-layer homology domain; Region: SLH; pfam00395 927704005371 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 927704005372 active site 927704005373 catalytic triad [active] 927704005374 oxyanion hole [active] 927704005375 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 927704005376 active site 927704005377 catalytic triad [active] 927704005378 oxyanion hole [active] 927704005379 glutamate dehydrogenase; Provisional; Region: PRK09414 927704005380 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 927704005381 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 927704005382 NAD(P) binding site [chemical binding]; other site 927704005383 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 927704005384 Part of AAA domain; Region: AAA_19; pfam13245 927704005385 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 927704005386 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 927704005387 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 927704005388 active site 927704005389 catalytic site [active] 927704005390 substrate binding site [chemical binding]; other site 927704005391 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 927704005392 Family description; Region: UvrD_C_2; pfam13538 927704005393 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 927704005394 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 927704005395 substrate binding pocket [chemical binding]; other site 927704005396 membrane-bound complex binding site; other site 927704005397 hinge residues; other site 927704005398 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 927704005399 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 927704005400 substrate binding pocket [chemical binding]; other site 927704005401 membrane-bound complex binding site; other site 927704005402 hinge residues; other site 927704005403 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704005404 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704005405 metal binding site [ion binding]; metal-binding site 927704005406 active site 927704005407 I-site; other site 927704005408 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 927704005409 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 927704005410 Competence protein; Region: Competence; pfam03772 927704005411 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 927704005412 SLBB domain; Region: SLBB; pfam10531 927704005413 comEA protein; Region: comE; TIGR01259 927704005414 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 927704005415 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 927704005416 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 927704005417 ligand binding site [chemical binding]; other site 927704005418 NAD binding site [chemical binding]; other site 927704005419 dimerization interface [polypeptide binding]; other site 927704005420 catalytic site [active] 927704005421 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 927704005422 putative L-serine binding site [chemical binding]; other site 927704005423 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 927704005424 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 927704005425 active site 927704005426 catalytic residues [active] 927704005427 metal binding site [ion binding]; metal-binding site 927704005428 homodimer binding site [polypeptide binding]; other site 927704005429 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 927704005430 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 927704005431 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 927704005432 putative acyl-acceptor binding pocket; other site 927704005433 cytidylate kinase; Provisional; Region: cmk; PRK00023 927704005434 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 927704005435 CMP-binding site; other site 927704005436 The sites determining sugar specificity; other site 927704005437 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 927704005438 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 927704005439 hinge; other site 927704005440 active site 927704005441 flavoprotein, HI0933 family; Region: TIGR00275 927704005442 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 927704005443 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 927704005444 RNA binding surface [nucleotide binding]; other site 927704005445 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 927704005446 active site 927704005447 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 927704005448 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 927704005449 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 927704005450 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 927704005451 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 927704005452 active site 927704005453 PHP Thumb interface [polypeptide binding]; other site 927704005454 metal binding site [ion binding]; metal-binding site 927704005455 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 927704005456 generic binding surface II; other site 927704005457 generic binding surface I; other site 927704005458 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704005459 active site 927704005460 dimerization interface [polypeptide binding]; other site 927704005461 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 927704005462 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 927704005463 FeS/SAM binding site; other site 927704005464 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 927704005465 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 927704005466 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 927704005467 non-specific DNA binding site [nucleotide binding]; other site 927704005468 salt bridge; other site 927704005469 sequence-specific DNA binding site [nucleotide binding]; other site 927704005470 Uncharacterized conserved protein [Function unknown]; Region: COG4748 927704005471 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 927704005472 hypothetical protein; Provisional; Region: PRK10281 927704005473 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 927704005474 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 927704005475 active site 927704005476 substrate-binding site [chemical binding]; other site 927704005477 metal-binding site [ion binding] 927704005478 ATP binding site [chemical binding]; other site 927704005479 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 927704005480 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704005481 dimer interface [polypeptide binding]; other site 927704005482 putative CheW interface [polypeptide binding]; other site 927704005483 Uncharacterized conserved protein [Function unknown]; Region: COG3287 927704005484 FIST N domain; Region: FIST; pfam08495 927704005485 FIST C domain; Region: FIST_C; pfam10442 927704005486 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 927704005487 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 927704005488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704005489 catalytic residue [active] 927704005490 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 927704005491 putative deacylase active site [active] 927704005492 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 927704005493 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 927704005494 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 927704005495 putative substrate binding site 2 [chemical binding]; other site 927704005496 putative substrate binding site 1 [chemical binding]; other site 927704005497 Na binding site 1 [ion binding]; other site 927704005498 Na2 binding site [ion binding]; other site 927704005499 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 927704005500 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 927704005501 Sugar specificity; other site 927704005502 Pyrimidine base specificity; other site 927704005503 ATP-binding site [chemical binding]; other site 927704005504 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 927704005505 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 927704005506 active site 927704005507 HIGH motif; other site 927704005508 dimer interface [polypeptide binding]; other site 927704005509 KMSKS motif; other site 927704005510 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 927704005511 RNA binding surface [nucleotide binding]; other site 927704005512 Transglycosylase; Region: Transgly; pfam00912 927704005513 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 927704005514 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 927704005515 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 927704005516 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 927704005517 PAS fold; Region: PAS_4; pfam08448 927704005518 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704005519 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704005520 metal binding site [ion binding]; metal-binding site 927704005521 active site 927704005522 I-site; other site 927704005523 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 927704005524 pentamer interface [polypeptide binding]; other site 927704005525 dodecaamer interface [polypeptide binding]; other site 927704005526 AAA domain; Region: AAA_26; pfam13500 927704005527 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 927704005528 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 927704005529 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 927704005530 inhibitor-cofactor binding pocket; inhibition site 927704005531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704005532 catalytic residue [active] 927704005533 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 927704005534 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 927704005535 substrate binding pocket [chemical binding]; other site 927704005536 membrane-bound complex binding site; other site 927704005537 hinge residues; other site 927704005538 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 927704005539 Zn2+ binding site [ion binding]; other site 927704005540 Mg2+ binding site [ion binding]; other site 927704005541 Sporulation and spore germination; Region: Germane; pfam10646 927704005542 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 927704005543 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 927704005544 active site 927704005545 metal binding site [ion binding]; metal-binding site 927704005546 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 927704005547 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 927704005548 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 927704005549 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 927704005550 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 927704005551 active site 927704005552 motif I; other site 927704005553 motif II; other site 927704005554 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 927704005555 Transposase; Region: DEDD_Tnp_IS110; pfam01548 927704005556 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 927704005557 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 927704005558 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 927704005559 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 927704005560 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 927704005561 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 927704005562 DctM-like transporters; Region: DctM; pfam06808 927704005563 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 927704005564 Part of AAA domain; Region: AAA_19; pfam13245 927704005565 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 927704005566 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704005567 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 927704005568 Probable transposase; Region: OrfB_IS605; pfam01385 927704005569 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704005570 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 927704005571 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 927704005572 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 927704005573 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 927704005574 ATP binding site [chemical binding]; other site 927704005575 putative Mg++ binding site [ion binding]; other site 927704005576 nucleotide binding region [chemical binding]; other site 927704005577 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 927704005578 ATP-binding site [chemical binding]; other site 927704005579 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 927704005580 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704005581 Walker A/P-loop; other site 927704005582 ATP binding site [chemical binding]; other site 927704005583 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704005584 Q-loop/lid; other site 927704005585 ABC transporter signature motif; other site 927704005586 Walker B; other site 927704005587 D-loop; other site 927704005588 H-loop/switch region; other site 927704005589 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 927704005590 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 927704005591 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 927704005592 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 927704005593 active site 927704005594 DNA binding site [nucleotide binding] 927704005595 Int/Topo IB signature motif; other site 927704005596 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 927704005597 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 927704005598 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 927704005599 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 927704005600 HsdM N-terminal domain; Region: HsdM_N; pfam12161 927704005601 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 927704005602 argininosuccinate lyase; Provisional; Region: PRK00855 927704005603 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 927704005604 active sites [active] 927704005605 tetramer interface [polypeptide binding]; other site 927704005606 argininosuccinate synthase; Provisional; Region: PRK13820 927704005607 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 927704005608 ANP binding site [chemical binding]; other site 927704005609 Substrate Binding Site II [chemical binding]; other site 927704005610 Substrate Binding Site I [chemical binding]; other site 927704005611 ornithine carbamoyltransferase; Provisional; Region: PRK00779 927704005612 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 927704005613 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 927704005614 acetylornithine aminotransferase; Provisional; Region: PRK02627 927704005615 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 927704005616 inhibitor-cofactor binding pocket; inhibition site 927704005617 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704005618 catalytic residue [active] 927704005619 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 927704005620 feedback inhibition sensing region; other site 927704005621 homohexameric interface [polypeptide binding]; other site 927704005622 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 927704005623 nucleotide binding site [chemical binding]; other site 927704005624 N-acetyl-L-glutamate binding site [chemical binding]; other site 927704005625 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 927704005626 heterotetramer interface [polypeptide binding]; other site 927704005627 active site pocket [active] 927704005628 cleavage site 927704005629 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 927704005630 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 927704005631 Transglycosylase; Region: Transgly; pfam00912 927704005632 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 927704005633 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 927704005634 TPP-binding site [chemical binding]; other site 927704005635 dimer interface [polypeptide binding]; other site 927704005636 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 927704005637 PYR/PP interface [polypeptide binding]; other site 927704005638 dimer interface [polypeptide binding]; other site 927704005639 TPP binding site [chemical binding]; other site 927704005640 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 927704005641 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 927704005642 homotrimer interaction site [polypeptide binding]; other site 927704005643 active site 927704005644 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 927704005645 ABC1 family; Region: ABC1; cl17513 927704005646 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 927704005647 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704005648 Walker A/P-loop; other site 927704005649 ATP binding site [chemical binding]; other site 927704005650 Q-loop/lid; other site 927704005651 ABC transporter signature motif; other site 927704005652 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 927704005653 Walker B; other site 927704005654 D-loop; other site 927704005655 ABC transporter; Region: ABC_tran_2; pfam12848 927704005656 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 927704005657 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 927704005658 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 927704005659 Sulfatase; Region: Sulfatase; pfam00884 927704005660 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 927704005661 elongation factor G; Reviewed; Region: PRK12740 927704005662 G1 box; other site 927704005663 putative GEF interaction site [polypeptide binding]; other site 927704005664 GTP/Mg2+ binding site [chemical binding]; other site 927704005665 Switch I region; other site 927704005666 G2 box; other site 927704005667 G3 box; other site 927704005668 Switch II region; other site 927704005669 G4 box; other site 927704005670 G5 box; other site 927704005671 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 927704005672 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 927704005673 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 927704005674 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 927704005675 IHF dimer interface [polypeptide binding]; other site 927704005676 IHF - DNA interface [nucleotide binding]; other site 927704005677 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 927704005678 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 927704005679 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 927704005680 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 927704005681 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 927704005682 putative L-serine binding site [chemical binding]; other site 927704005683 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 927704005684 dihydrodipicolinate synthase; Region: dapA; TIGR00674 927704005685 dimer interface [polypeptide binding]; other site 927704005686 active site 927704005687 catalytic residue [active] 927704005688 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 927704005689 active site 927704005690 dimer interface [polypeptide binding]; other site 927704005691 metal binding site [ion binding]; metal-binding site 927704005692 shikimate kinase; Reviewed; Region: aroK; PRK00131 927704005693 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 927704005694 ADP binding site [chemical binding]; other site 927704005695 magnesium binding site [ion binding]; other site 927704005696 putative shikimate binding site; other site 927704005697 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 927704005698 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 927704005699 Tetramer interface [polypeptide binding]; other site 927704005700 active site 927704005701 FMN-binding site [chemical binding]; other site 927704005702 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 927704005703 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 927704005704 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 927704005705 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 927704005706 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 927704005707 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 927704005708 dimer interface [polypeptide binding]; other site 927704005709 PYR/PP interface [polypeptide binding]; other site 927704005710 TPP binding site [chemical binding]; other site 927704005711 substrate binding site [chemical binding]; other site 927704005712 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 927704005713 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 927704005714 Domain of unknown function; Region: EKR; smart00890 927704005715 4Fe-4S binding domain; Region: Fer4_6; pfam12837 927704005716 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 927704005717 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 927704005718 TPP-binding site [chemical binding]; other site 927704005719 dimer interface [polypeptide binding]; other site 927704005720 DAK2 domain; Region: Dak2; cl03685 927704005721 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 927704005722 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 927704005723 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 927704005724 Autotransporter beta-domain; Region: Autotransporter; smart00869 927704005725 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 927704005726 Beta-lactamase; Region: Beta-lactamase; pfam00144 927704005727 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 927704005728 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 927704005729 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 927704005730 S-adenosylmethionine binding site [chemical binding]; other site 927704005731 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 927704005732 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 927704005733 motif II; other site 927704005734 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 927704005735 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 927704005736 GatB domain; Region: GatB_Yqey; smart00845 927704005737 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 927704005738 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 927704005739 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 927704005740 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 927704005741 A new structural DNA glycosylase; Region: AlkD_like; cd06561 927704005742 active site 927704005743 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 927704005744 primosomal protein N' Region: priA; TIGR00595 927704005745 ATP binding site [chemical binding]; other site 927704005746 putative Mg++ binding site [ion binding]; other site 927704005747 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 927704005748 ATP-binding site [chemical binding]; other site 927704005749 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 927704005750 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 927704005751 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 927704005752 dimer interface [polypeptide binding]; other site 927704005753 phosphorylation site [posttranslational modification] 927704005754 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 927704005755 ATP binding site [chemical binding]; other site 927704005756 G-X-G motif; other site 927704005757 Response regulator receiver domain; Region: Response_reg; pfam00072 927704005758 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704005759 active site 927704005760 phosphorylation site [posttranslational modification] 927704005761 intermolecular recognition site; other site 927704005762 dimerization interface [polypeptide binding]; other site 927704005763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 927704005764 Nucleoside recognition; Region: Gate; pfam07670 927704005765 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 927704005766 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 927704005767 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 927704005768 Walker A motif; other site 927704005769 ATP binding site [chemical binding]; other site 927704005770 Walker B motif; other site 927704005771 arginine finger; other site 927704005772 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 927704005773 hypothetical protein; Reviewed; Region: PRK12497 927704005774 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 927704005775 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 927704005776 RNA/DNA hybrid binding site [nucleotide binding]; other site 927704005777 active site 927704005778 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 927704005779 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 927704005780 GTP/Mg2+ binding site [chemical binding]; other site 927704005781 G4 box; other site 927704005782 G5 box; other site 927704005783 G1 box; other site 927704005784 Switch I region; other site 927704005785 G2 box; other site 927704005786 G3 box; other site 927704005787 Switch II region; other site 927704005788 Putative motility protein; Region: YjfB_motility; pfam14070 927704005789 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 927704005790 flagellin; Provisional; Region: PRK12806 927704005791 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 927704005792 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 927704005793 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 927704005794 HIGH motif; other site 927704005795 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 927704005796 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 927704005797 active site 927704005798 KMSKS motif; other site 927704005799 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 927704005800 tRNA binding surface [nucleotide binding]; other site 927704005801 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 927704005802 Uncharacterized conserved protein [Function unknown]; Region: COG1284 927704005803 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 927704005804 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 927704005805 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 927704005806 Uncharacterized conserved protein [Function unknown]; Region: COG0327 927704005807 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 927704005808 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 927704005809 Family of unknown function (DUF633); Region: DUF633; pfam04816 927704005810 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 927704005811 catalytic core [active] 927704005812 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 927704005813 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 927704005814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704005815 homodimer interface [polypeptide binding]; other site 927704005816 catalytic residue [active] 927704005817 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 927704005818 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 927704005819 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 927704005820 catalytic triad [active] 927704005821 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 927704005822 hypothetical protein; Provisional; Region: PRK13670 927704005823 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 927704005824 putative lipid kinase; Reviewed; Region: PRK13059 927704005825 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 927704005826 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 927704005827 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 927704005828 Cache domain; Region: Cache_1; pfam02743 927704005829 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 927704005830 dimerization interface [polypeptide binding]; other site 927704005831 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704005832 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704005833 metal binding site [ion binding]; metal-binding site 927704005834 active site 927704005835 I-site; other site 927704005836 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 927704005837 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 927704005838 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 927704005839 FeS/SAM binding site; other site 927704005840 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 927704005841 active site 927704005842 Fic/DOC family; Region: Fic; cl00960 927704005843 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 927704005844 active site 927704005845 NTP binding site [chemical binding]; other site 927704005846 metal binding triad [ion binding]; metal-binding site 927704005847 antibiotic binding site [chemical binding]; other site 927704005848 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 927704005849 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 927704005850 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 927704005851 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 927704005852 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 927704005853 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 927704005854 Protein gp23 (Bacteriophage A118); Region: Phage_Gp23; pfam10669 927704005855 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 927704005856 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 927704005857 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 927704005858 ATP binding site [chemical binding]; other site 927704005859 putative Mg++ binding site [ion binding]; other site 927704005860 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 927704005861 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 927704005862 DXD motif; other site 927704005863 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 927704005864 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 927704005865 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 927704005866 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 927704005867 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 927704005868 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 927704005869 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704005870 active site 927704005871 phosphorylation site [posttranslational modification] 927704005872 intermolecular recognition site; other site 927704005873 dimerization interface [polypeptide binding]; other site 927704005874 ANTAR domain; Region: ANTAR; pfam03861 927704005875 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 927704005876 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 927704005877 Histidine kinase; Region: HisKA_2; pfam07568 927704005878 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 927704005879 ATP binding site [chemical binding]; other site 927704005880 Mg2+ binding site [ion binding]; other site 927704005881 G-X-G motif; other site 927704005882 UGMP family protein; Validated; Region: PRK09604 927704005883 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 927704005884 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 927704005885 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 927704005886 Coenzyme A binding pocket [chemical binding]; other site 927704005887 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 927704005888 Glycoprotease family; Region: Peptidase_M22; pfam00814 927704005889 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 927704005890 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 927704005891 Rubredoxin; Region: Rubredoxin; pfam00301 927704005892 iron binding site [ion binding]; other site 927704005893 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 927704005894 Rubrerythrin [Energy production and conversion]; Region: COG1592 927704005895 diiron binding motif [ion binding]; other site 927704005896 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 927704005897 substrate binding pocket [chemical binding]; other site 927704005898 membrane-bound complex binding site; other site 927704005899 hinge residues; other site 927704005900 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 927704005901 substrate binding pocket [chemical binding]; other site 927704005902 membrane-bound complex binding site; other site 927704005903 hinge residues; other site 927704005904 PAS fold; Region: PAS_3; pfam08447 927704005905 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 927704005906 dimer interface [polypeptide binding]; other site 927704005907 phosphorylation site [posttranslational modification] 927704005908 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 927704005909 ATP binding site [chemical binding]; other site 927704005910 Mg2+ binding site [ion binding]; other site 927704005911 G-X-G motif; other site 927704005912 Response regulator receiver domain; Region: Response_reg; pfam00072 927704005913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704005914 active site 927704005915 phosphorylation site [posttranslational modification] 927704005916 intermolecular recognition site; other site 927704005917 dimerization interface [polypeptide binding]; other site 927704005918 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 927704005919 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704005920 Walker A/P-loop; other site 927704005921 ATP binding site [chemical binding]; other site 927704005922 Q-loop/lid; other site 927704005923 ABC transporter signature motif; other site 927704005924 Walker B; other site 927704005925 D-loop; other site 927704005926 H-loop/switch region; other site 927704005927 ABC transporter; Region: ABC_tran_2; pfam12848 927704005928 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 927704005929 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 927704005930 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 927704005931 transmembrane helices; other site 927704005932 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 927704005933 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 927704005934 active site 927704005935 HIGH motif; other site 927704005936 nucleotide binding site [chemical binding]; other site 927704005937 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 927704005938 KMSKS motif; other site 927704005939 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 927704005940 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 927704005941 Zn2+ binding site [ion binding]; other site 927704005942 Mg2+ binding site [ion binding]; other site 927704005943 chaperone protein DnaJ; Provisional; Region: PRK10767 927704005944 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 927704005945 HSP70 interaction site [polypeptide binding]; other site 927704005946 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 927704005947 substrate binding site [polypeptide binding]; other site 927704005948 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 927704005949 Zn binding sites [ion binding]; other site 927704005950 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 927704005951 dimer interface [polypeptide binding]; other site 927704005952 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 927704005953 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 927704005954 nucleotide binding site [chemical binding]; other site 927704005955 NEF interaction site [polypeptide binding]; other site 927704005956 SBD interface [polypeptide binding]; other site 927704005957 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 927704005958 dimer interface [polypeptide binding]; other site 927704005959 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 927704005960 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 927704005961 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 927704005962 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 927704005963 TrkA-N domain; Region: TrkA_N; pfam02254 927704005964 TrkA-C domain; Region: TrkA_C; pfam02080 927704005965 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 927704005966 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 927704005967 diaminopimelate epimerase; Provisional; Region: PRK13577 927704005968 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 927704005969 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 927704005970 PAS domain; Region: PAS_10; pfam13596 927704005971 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 927704005972 CcmE; Region: CcmE; cl00994 927704005973 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 927704005974 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704005975 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 927704005976 Walker A/P-loop; other site 927704005977 ATP binding site [chemical binding]; other site 927704005978 Q-loop/lid; other site 927704005979 ABC transporter signature motif; other site 927704005980 Walker B; other site 927704005981 D-loop; other site 927704005982 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 927704005983 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 927704005984 ligand binding site [chemical binding]; other site 927704005985 Cytochrome c552; Region: Cytochrom_C552; pfam02335 927704005986 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 927704005987 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 927704005988 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 927704005989 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 927704005990 FtsX-like permease family; Region: FtsX; pfam02687 927704005991 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 927704005992 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 927704005993 Walker A/P-loop; other site 927704005994 ATP binding site [chemical binding]; other site 927704005995 Q-loop/lid; other site 927704005996 ABC transporter signature motif; other site 927704005997 Walker B; other site 927704005998 D-loop; other site 927704005999 H-loop/switch region; other site 927704006000 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 927704006001 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 927704006002 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 927704006003 HlyD family secretion protein; Region: HlyD_3; pfam13437 927704006004 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 927704006005 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 927704006006 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 927704006007 ATP binding site [chemical binding]; other site 927704006008 putative Mg++ binding site [ion binding]; other site 927704006009 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 927704006010 nucleotide binding region [chemical binding]; other site 927704006011 ATP-binding site [chemical binding]; other site 927704006012 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 927704006013 HRDC domain; Region: HRDC; pfam00570 927704006014 Integrase core domain; Region: rve; pfam00665 927704006015 Integrase core domain; Region: rve_2; pfam13333 927704006016 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704006017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 927704006018 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704006019 Winged helix-turn helix; Region: HTH_29; pfam13551 927704006020 Autotransporter beta-domain; Region: Autotransporter; pfam03797 927704006021 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 927704006022 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 927704006023 Cl- selectivity filter; other site 927704006024 Cl- binding residues [ion binding]; other site 927704006025 pore gating glutamate residue; other site 927704006026 dimer interface [polypeptide binding]; other site 927704006027 H+/Cl- coupling transport residue; other site 927704006028 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 927704006029 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 927704006030 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 927704006031 dimer interface [polypeptide binding]; other site 927704006032 ssDNA binding site [nucleotide binding]; other site 927704006033 tetramer (dimer of dimers) interface [polypeptide binding]; other site 927704006034 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 927704006035 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 927704006036 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 927704006037 active site 927704006038 dimer interface [polypeptide binding]; other site 927704006039 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 927704006040 Radical SAM superfamily; Region: Radical_SAM; pfam04055 927704006041 FeS/SAM binding site; other site 927704006042 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 927704006043 putative active site [active] 927704006044 catalytic residue [active] 927704006045 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 927704006046 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 927704006047 GIY-YIG motif/motif A; other site 927704006048 putative active site [active] 927704006049 putative metal binding site [ion binding]; other site 927704006050 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 927704006051 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 927704006052 active site 927704006053 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 927704006054 S-adenosylmethionine binding site [chemical binding]; other site 927704006055 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 927704006056 Uncharacterized conserved protein [Function unknown]; Region: COG1284 927704006057 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 927704006058 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 927704006059 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 927704006060 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 927704006061 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 927704006062 putative active site [active] 927704006063 dimerization interface [polypeptide binding]; other site 927704006064 putative tRNAtyr binding site [nucleotide binding]; other site 927704006065 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 927704006066 metal binding triad [ion binding]; metal-binding site 927704006067 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 927704006068 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 927704006069 dimerization interface 3.5A [polypeptide binding]; other site 927704006070 active site 927704006071 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 927704006072 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 927704006073 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 927704006074 Walker A/P-loop; other site 927704006075 ATP binding site [chemical binding]; other site 927704006076 Q-loop/lid; other site 927704006077 ABC transporter signature motif; other site 927704006078 Walker B; other site 927704006079 D-loop; other site 927704006080 H-loop/switch region; other site 927704006081 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 927704006082 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 927704006083 Walker A/P-loop; other site 927704006084 ATP binding site [chemical binding]; other site 927704006085 Q-loop/lid; other site 927704006086 ABC transporter signature motif; other site 927704006087 Walker B; other site 927704006088 D-loop; other site 927704006089 H-loop/switch region; other site 927704006090 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 927704006091 HTH domain; Region: HTH_11; pfam08279 927704006092 3H domain; Region: 3H; pfam02829 927704006093 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 927704006094 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 927704006095 active site 927704006096 motif I; other site 927704006097 motif II; other site 927704006098 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 927704006099 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 927704006100 putative active site [active] 927704006101 Protein of unknown function (DUF523); Region: DUF523; pfam04463 927704006102 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 927704006103 active site 927704006104 catalytic site [active] 927704006105 substrate binding site [chemical binding]; other site 927704006106 putative oxidoreductase; Provisional; Region: PRK12831 927704006107 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 927704006108 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 927704006109 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 927704006110 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 927704006111 FAD binding pocket [chemical binding]; other site 927704006112 FAD binding motif [chemical binding]; other site 927704006113 phosphate binding motif [ion binding]; other site 927704006114 beta-alpha-beta structure motif; other site 927704006115 NAD binding pocket [chemical binding]; other site 927704006116 Iron coordination center [ion binding]; other site 927704006117 5,10-methylenetetrahydrofolate reductase [Amino acid transport and metabolism]; Region: MetF; COG0685 927704006118 FAD binding site [chemical binding]; other site 927704006119 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 927704006120 ligand binding site [chemical binding]; other site 927704006121 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 927704006122 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 927704006123 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 927704006124 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 927704006125 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 927704006126 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 927704006127 active site 927704006128 P-loop; other site 927704006129 phosphorylation site [posttranslational modification] 927704006130 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 927704006131 active site 927704006132 phosphorylation site [posttranslational modification] 927704006133 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 927704006134 HTH domain; Region: HTH_11; pfam08279 927704006135 HTH domain; Region: HTH_11; pfam08279 927704006136 PRD domain; Region: PRD; pfam00874 927704006137 PRD domain; Region: PRD; pfam00874 927704006138 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 927704006139 active site 927704006140 P-loop; other site 927704006141 phosphorylation site [posttranslational modification] 927704006142 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 927704006143 S-adenosylmethionine binding site [chemical binding]; other site 927704006144 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 927704006145 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 927704006146 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 927704006147 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 927704006148 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 927704006149 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 927704006150 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 927704006151 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 927704006152 G-loop; other site 927704006153 DNA binding site [nucleotide binding] 927704006154 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 927704006155 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 927704006156 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 927704006157 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 927704006158 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 927704006159 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 927704006160 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 927704006161 RPB1 interaction site [polypeptide binding]; other site 927704006162 RPB10 interaction site [polypeptide binding]; other site 927704006163 RPB11 interaction site [polypeptide binding]; other site 927704006164 RPB3 interaction site [polypeptide binding]; other site 927704006165 RPB12 interaction site [polypeptide binding]; other site 927704006166 Predicted membrane protein [Function unknown]; Region: COG2860 927704006167 UPF0126 domain; Region: UPF0126; pfam03458 927704006168 UPF0126 domain; Region: UPF0126; pfam03458 927704006169 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 927704006170 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 927704006171 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 927704006172 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 927704006173 peptidase T-like protein; Region: PepT-like; TIGR01883 927704006174 metal binding site [ion binding]; metal-binding site 927704006175 putative dimer interface [polypeptide binding]; other site 927704006176 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 927704006177 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 927704006178 FtsH Extracellular; Region: FtsH_ext; pfam06480 927704006179 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 927704006180 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 927704006181 Walker A motif; other site 927704006182 ATP binding site [chemical binding]; other site 927704006183 Walker B motif; other site 927704006184 arginine finger; other site 927704006185 Peptidase family M41; Region: Peptidase_M41; pfam01434 927704006186 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 927704006187 active site 927704006188 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 927704006189 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 927704006190 Ligand Binding Site [chemical binding]; other site 927704006191 TilS substrate C-terminal domain; Region: TilS_C; smart00977 927704006192 general stress protein 13; Validated; Region: PRK08059 927704006193 S1_RPS1_repeat_hs4: 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_hs4; cd05692 927704006194 RNA binding site [nucleotide binding]; other site 927704006195 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 927704006196 Septum formation initiator; Region: DivIC; cl17659 927704006197 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 927704006198 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 927704006199 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 927704006200 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 927704006201 classical (c) SDRs; Region: SDR_c; cd05233 927704006202 NAD(P) binding site [chemical binding]; other site 927704006203 active site 927704006204 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 927704006205 IHF dimer interface [polypeptide binding]; other site 927704006206 IHF - DNA interface [nucleotide binding]; other site 927704006207 hypothetical protein; Provisional; Region: PRK13665 927704006208 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 927704006209 Yqey-like protein; Region: YqeY; pfam09424 927704006210 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 927704006211 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 927704006212 nucleotide binding site/active site [active] 927704006213 HIT family signature motif; other site 927704006214 catalytic residue [active] 927704006215 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 927704006216 Low molecular weight phosphatase family; Region: LMWPc; cd00115 927704006217 active site 927704006218 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 927704006219 active site 927704006220 dimer interfaces [polypeptide binding]; other site 927704006221 catalytic residues [active] 927704006222 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 927704006223 putative SAM binding site [chemical binding]; other site 927704006224 putative homodimer interface [polypeptide binding]; other site 927704006225 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 927704006226 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 927704006227 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 927704006228 ATP binding site [chemical binding]; other site 927704006229 putative Mg++ binding site [ion binding]; other site 927704006230 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 927704006231 nucleotide binding region [chemical binding]; other site 927704006232 ATP-binding site [chemical binding]; other site 927704006233 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 927704006234 CTP synthetase; Validated; Region: pyrG; PRK05380 927704006235 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 927704006236 Catalytic site [active] 927704006237 active site 927704006238 UTP binding site [chemical binding]; other site 927704006239 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 927704006240 active site 927704006241 putative oxyanion hole; other site 927704006242 catalytic triad [active] 927704006243 DNA-directed RNA polymerase subunit delta; Reviewed; Region: PRK02363 927704006244 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 927704006245 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 927704006246 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 927704006247 active site 927704006248 HIGH motif; other site 927704006249 KMSK motif region; other site 927704006250 tRNA binding surface [nucleotide binding]; other site 927704006251 DALR anticodon binding domain; Region: DALR_1; smart00836 927704006252 anticodon binding site; other site 927704006253 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 927704006254 Cache domain; Region: Cache_1; pfam02743 927704006255 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 927704006256 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 927704006257 dimerization interface [polypeptide binding]; other site 927704006258 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704006259 dimer interface [polypeptide binding]; other site 927704006260 putative CheW interface [polypeptide binding]; other site 927704006261 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 927704006262 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 927704006263 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704006264 Response regulator receiver domain; Region: Response_reg; pfam00072 927704006265 active site 927704006266 phosphorylation site [posttranslational modification] 927704006267 intermolecular recognition site; other site 927704006268 dimerization interface [polypeptide binding]; other site 927704006269 Chemotaxis phosphatase CheX; Region: CheX; cl15816 927704006270 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 927704006271 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 927704006272 Na binding site [ion binding]; other site 927704006273 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 927704006274 hydroxyglutarate oxidase; Provisional; Region: PRK11728 927704006275 L-lactate permease; Region: Lactate_perm; cl00701 927704006276 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 927704006277 Dihydroneopterin aldolase; Region: FolB; pfam02152 927704006278 active site 927704006279 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 927704006280 NlpC/P60 family; Region: NLPC_P60; pfam00877 927704006281 hypothetical protein; Provisional; Region: PRK04194 927704006282 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 927704006283 AIR carboxylase; Region: AIRC; smart01001 927704006284 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 927704006285 amphipathic channel; other site 927704006286 Asn-Pro-Ala signature motifs; other site 927704006287 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 927704006288 HTH domain; Region: HTH_11; pfam08279 927704006289 Mga helix-turn-helix domain; Region: Mga; pfam05043 927704006290 CblD like pilus biogenesis initiator; Region: CblD; cl06460 927704006291 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 927704006292 DNA binding residues [nucleotide binding] 927704006293 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 927704006294 dimer interface [polypeptide binding]; other site 927704006295 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 927704006296 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 927704006297 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 927704006298 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 927704006299 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 927704006300 Membrane transport protein; Region: Mem_trans; cl09117 927704006301 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 927704006302 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 927704006303 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 927704006304 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 927704006305 HAMP domain; Region: HAMP; pfam00672 927704006306 dimerization interface [polypeptide binding]; other site 927704006307 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704006308 dimer interface [polypeptide binding]; other site 927704006309 putative CheW interface [polypeptide binding]; other site 927704006310 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 927704006311 HAMP domain; Region: HAMP; pfam00672 927704006312 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704006313 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704006314 dimer interface [polypeptide binding]; other site 927704006315 putative CheW interface [polypeptide binding]; other site 927704006316 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 927704006317 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 927704006318 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 927704006319 peptide chain release factor 2; Validated; Region: prfB; PRK00578 927704006320 This domain is found in peptide chain release factors; Region: PCRF; smart00937 927704006321 RF-1 domain; Region: RF-1; pfam00472 927704006322 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 927704006323 DEAD/DEAH box helicase; Region: DEAD; pfam00270 927704006324 ATP binding site [chemical binding]; other site 927704006325 putative Mg++ binding site [ion binding]; other site 927704006326 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 927704006327 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 927704006328 nucleotide binding region [chemical binding]; other site 927704006329 ATP-binding site [chemical binding]; other site 927704006330 SEC-C motif; Region: SEC-C; pfam02810 927704006331 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 927704006332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704006333 active site 927704006334 phosphorylation site [posttranslational modification] 927704006335 intermolecular recognition site; other site 927704006336 dimerization interface [polypeptide binding]; other site 927704006337 CheB methylesterase; Region: CheB_methylest; pfam01339 927704006338 Amino acid permease; Region: AA_permease_2; pfam13520 927704006339 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 927704006340 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 927704006341 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 927704006342 ATP binding site [chemical binding]; other site 927704006343 Mg2+ binding site [ion binding]; other site 927704006344 G-X-G motif; other site 927704006345 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 927704006346 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 927704006347 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 927704006348 ATP binding site [chemical binding]; other site 927704006349 Mg2+ binding site [ion binding]; other site 927704006350 G-X-G motif; other site 927704006351 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 927704006352 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 927704006353 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 927704006354 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704006355 dimer interface [polypeptide binding]; other site 927704006356 putative CheW interface [polypeptide binding]; other site 927704006357 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 927704006358 HAMP domain; Region: HAMP; pfam00672 927704006359 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 927704006360 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704006361 dimer interface [polypeptide binding]; other site 927704006362 putative CheW interface [polypeptide binding]; other site 927704006363 Cache domain; Region: Cache_1; pfam02743 927704006364 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 927704006365 dimerization interface [polypeptide binding]; other site 927704006366 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704006367 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704006368 dimer interface [polypeptide binding]; other site 927704006369 putative CheW interface [polypeptide binding]; other site 927704006370 Cache domain; Region: Cache_1; pfam02743 927704006371 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 927704006372 dimerization interface [polypeptide binding]; other site 927704006373 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704006374 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704006375 dimer interface [polypeptide binding]; other site 927704006376 putative CheW interface [polypeptide binding]; other site 927704006377 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 927704006378 30S subunit binding site; other site 927704006379 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 927704006380 DNA-binding site [nucleotide binding]; DNA binding site 927704006381 RNA-binding motif; other site 927704006382 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 927704006383 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 927704006384 Walker A/P-loop; other site 927704006385 ATP binding site [chemical binding]; other site 927704006386 Q-loop/lid; other site 927704006387 ABC transporter signature motif; other site 927704006388 Walker B; other site 927704006389 D-loop; other site 927704006390 H-loop/switch region; other site 927704006391 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 927704006392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704006393 dimer interface [polypeptide binding]; other site 927704006394 conserved gate region; other site 927704006395 putative PBP binding loops; other site 927704006396 ABC-ATPase subunit interface; other site 927704006397 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 927704006398 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 927704006399 substrate binding pocket [chemical binding]; other site 927704006400 membrane-bound complex binding site; other site 927704006401 hinge residues; other site 927704006402 Probable zinc-binding domain; Region: zf-trcl; pfam13451 927704006403 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 927704006404 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 927704006405 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 927704006406 Flagellin N-methylase; Region: FliB; cl00497 927704006407 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 927704006408 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 927704006409 Methyltransferase domain; Region: Methyltransf_31; pfam13847 927704006410 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 927704006411 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 927704006412 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 927704006413 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 927704006414 active site 927704006415 catalytic motif [active] 927704006416 Zn binding site [ion binding]; other site 927704006417 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 927704006418 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 927704006419 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 927704006420 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 927704006421 phosphopentomutase; Provisional; Region: PRK05362 927704006422 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 927704006423 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 927704006424 intersubunit interface [polypeptide binding]; other site 927704006425 active site 927704006426 catalytic residue [active] 927704006427 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 927704006428 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 927704006429 FeS/SAM binding site; other site 927704006430 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 927704006431 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 927704006432 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 927704006433 FeS/SAM binding site; other site 927704006434 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 927704006435 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 927704006436 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 927704006437 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 927704006438 Uncharacterized conserved protein [Function unknown]; Region: COG1739 927704006439 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 927704006440 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 927704006441 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 927704006442 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 927704006443 trimer interface [polypeptide binding]; other site 927704006444 putative metal binding site [ion binding]; other site 927704006445 elongation factor Ts; Provisional; Region: tsf; PRK09377 927704006446 UBA/TS-N domain; Region: UBA; pfam00627 927704006447 Elongation factor TS; Region: EF_TS; pfam00889 927704006448 Elongation factor TS; Region: EF_TS; pfam00889 927704006449 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 927704006450 rRNA interaction site [nucleotide binding]; other site 927704006451 S8 interaction site; other site 927704006452 putative laminin-1 binding site; other site 927704006453 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 927704006454 beta-galactosidase; Region: BGL; TIGR03356 927704006455 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 927704006456 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 927704006457 active site turn [active] 927704006458 phosphorylation site [posttranslational modification] 927704006459 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 927704006460 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 927704006461 HPr interaction site; other site 927704006462 glycerol kinase (GK) interaction site [polypeptide binding]; other site 927704006463 active site 927704006464 phosphorylation site [posttranslational modification] 927704006465 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704006466 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 927704006467 non-specific DNA binding site [nucleotide binding]; other site 927704006468 salt bridge; other site 927704006469 sequence-specific DNA binding site [nucleotide binding]; other site 927704006470 Domain of unknown function (DUF955); Region: DUF955; pfam06114 927704006471 stage V sporulation protein K; Region: spore_V_K; TIGR02881 927704006472 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 927704006473 Walker A motif; other site 927704006474 ATP binding site [chemical binding]; other site 927704006475 Walker B motif; other site 927704006476 arginine finger; other site 927704006477 stage V sporulation protein K; Region: spore_V_K; TIGR02881 927704006478 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 927704006479 Walker A motif; other site 927704006480 ATP binding site [chemical binding]; other site 927704006481 Walker B motif; other site 927704006482 arginine finger; other site 927704006483 Predicted peptidase [General function prediction only]; Region: COG4099 927704006484 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 927704006485 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 927704006486 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 927704006487 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 927704006488 transcriptional antiterminator BglG; Provisional; Region: PRK09772 927704006489 CAT RNA binding domain; Region: CAT_RBD; smart01061 927704006490 PRD domain; Region: PRD; pfam00874 927704006491 PRD domain; Region: PRD; pfam00874 927704006492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704006493 active site 927704006494 phosphorylation site [posttranslational modification] 927704006495 intermolecular recognition site; other site 927704006496 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 927704006497 Zn2+ binding site [ion binding]; other site 927704006498 Mg2+ binding site [ion binding]; other site 927704006499 TPR repeat; Region: TPR_11; pfam13414 927704006500 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 927704006501 binding surface 927704006502 TPR motif; other site 927704006503 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 927704006504 active site 927704006505 catalytic triad [active] 927704006506 oxyanion hole [active] 927704006507 Transcriptional regulators [Transcription]; Region: PurR; COG1609 927704006508 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 927704006509 DNA binding site [nucleotide binding] 927704006510 domain linker motif; other site 927704006511 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 927704006512 dimerization interface [polypeptide binding]; other site 927704006513 ligand binding site [chemical binding]; other site 927704006514 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 927704006515 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 927704006516 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 927704006517 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 927704006518 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 927704006519 NAD binding site [chemical binding]; other site 927704006520 homodimer interface [polypeptide binding]; other site 927704006521 active site 927704006522 substrate binding site [chemical binding]; other site 927704006523 galactokinase; Provisional; Region: PRK05322 927704006524 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 927704006525 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 927704006526 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 927704006527 benzoate transport; Region: 2A0115; TIGR00895 927704006528 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 927704006529 putative substrate translocation pore; other site 927704006530 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 927704006531 Integrase core domain; Region: rve; pfam00665 927704006532 Integrase core domain; Region: rve_2; pfam13333 927704006533 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704006534 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 927704006535 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704006536 Winged helix-turn helix; Region: HTH_29; pfam13551 927704006537 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 927704006538 DNA binding residues [nucleotide binding] 927704006539 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 927704006540 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 927704006541 catalytic residues [active] 927704006542 catalytic nucleophile [active] 927704006543 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704006544 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 927704006545 Probable transposase; Region: OrfB_IS605; pfam01385 927704006546 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704006547 recombination regulator RecX; Reviewed; Region: recX; PRK00117 927704006548 recombinase A; Provisional; Region: recA; PRK09354 927704006549 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 927704006550 hexamer interface [polypeptide binding]; other site 927704006551 Walker A motif; other site 927704006552 ATP binding site [chemical binding]; other site 927704006553 Walker B motif; other site 927704006554 Hpt domain; Region: Hpt; pfam01627 927704006555 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 927704006556 putative homodimer interface [polypeptide binding]; other site 927704006557 putative homotetramer interface [polypeptide binding]; other site 927704006558 putative metal binding site [ion binding]; other site 927704006559 putative homodimer-homodimer interface [polypeptide binding]; other site 927704006560 putative allosteric switch controlling residues; other site 927704006561 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 927704006562 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 927704006563 active site 927704006564 HIGH motif; other site 927704006565 nucleotide binding site [chemical binding]; other site 927704006566 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 927704006567 active site 927704006568 KMSKS motif; other site 927704006569 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 927704006570 tRNA binding surface [nucleotide binding]; other site 927704006571 anticodon binding site; other site 927704006572 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 927704006573 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 927704006574 putative active site; other site 927704006575 catalytic triad [active] 927704006576 putative dimer interface [polypeptide binding]; other site 927704006577 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 927704006578 agmatine deiminase; Region: agmatine_aguA; TIGR03380 927704006579 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 927704006580 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 927704006581 dimer interface [polypeptide binding]; other site 927704006582 active site 927704006583 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 927704006584 catalytic residues [active] 927704006585 substrate binding site [chemical binding]; other site 927704006586 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 927704006587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 927704006588 spermidine synthase; Provisional; Region: PRK00811 927704006589 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 927704006590 S-adenosylmethionine binding site [chemical binding]; other site 927704006591 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 927704006592 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 927704006593 homodimer interface [polypeptide binding]; other site 927704006594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704006595 catalytic residue [active] 927704006596 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 927704006597 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 927704006598 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 927704006599 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 927704006600 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 927704006601 putative N- and C-terminal domain interface [polypeptide binding]; other site 927704006602 D-xylulose kinase; Region: XylB; TIGR01312 927704006603 putative active site [active] 927704006604 MgATP binding site [chemical binding]; other site 927704006605 catalytic site [active] 927704006606 metal binding site [ion binding]; metal-binding site 927704006607 putative carbohydrate binding site [chemical binding]; other site 927704006608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 927704006609 short chain dehydrogenase; Provisional; Region: PRK06114 927704006610 NAD(P) binding site [chemical binding]; other site 927704006611 active site 927704006612 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 927704006613 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 927704006614 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 927704006615 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 927704006616 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 927704006617 putative substrate translocation pore; other site 927704006618 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 927704006619 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 927704006620 Cache domain; Region: Cache_1; pfam02743 927704006621 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 927704006622 dimerization interface [polypeptide binding]; other site 927704006623 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704006624 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704006625 dimer interface [polypeptide binding]; other site 927704006626 putative CheW interface [polypeptide binding]; other site 927704006627 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 927704006628 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 927704006629 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 927704006630 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 927704006631 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 927704006632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 927704006633 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 927704006634 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 927704006635 ATP binding site [chemical binding]; other site 927704006636 Mg++ binding site [ion binding]; other site 927704006637 motif III; other site 927704006638 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 927704006639 nucleotide binding region [chemical binding]; other site 927704006640 ATP-binding site [chemical binding]; other site 927704006641 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 927704006642 RNA binding site [nucleotide binding]; other site 927704006643 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 927704006644 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 927704006645 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 927704006646 FeS/SAM binding site; other site 927704006647 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 927704006648 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 927704006649 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 927704006650 Response regulator receiver domain; Region: Response_reg; pfam00072 927704006651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704006652 active site 927704006653 phosphorylation site [posttranslational modification] 927704006654 intermolecular recognition site; other site 927704006655 dimerization interface [polypeptide binding]; other site 927704006656 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 927704006657 S1 domain; Region: S1_2; pfam13509 927704006658 S1 domain; Region: S1_2; pfam13509 927704006659 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 927704006660 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 927704006661 Transcriptional regulator [Transcription]; Region: LytR; COG1316 927704006662 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 927704006663 Zn2+ binding site [ion binding]; other site 927704006664 Mg2+ binding site [ion binding]; other site 927704006665 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 927704006666 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 927704006667 active site 927704006668 (T/H)XGH motif; other site 927704006669 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 927704006670 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 927704006671 putative catalytic cysteine [active] 927704006672 gamma-glutamyl kinase; Provisional; Region: PRK05429 927704006673 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 927704006674 nucleotide binding site [chemical binding]; other site 927704006675 homotetrameric interface [polypeptide binding]; other site 927704006676 putative phosphate binding site [ion binding]; other site 927704006677 putative allosteric binding site; other site 927704006678 PUA domain; Region: PUA; pfam01472 927704006679 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 927704006680 GTPase CgtA; Reviewed; Region: obgE; PRK12297 927704006681 GTP1/OBG; Region: GTP1_OBG; pfam01018 927704006682 Obg GTPase; Region: Obg; cd01898 927704006683 G1 box; other site 927704006684 GTP/Mg2+ binding site [chemical binding]; other site 927704006685 Switch I region; other site 927704006686 G2 box; other site 927704006687 G3 box; other site 927704006688 Switch II region; other site 927704006689 G4 box; other site 927704006690 G5 box; other site 927704006691 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 927704006692 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 927704006693 Protein of unknown function (DUF464); Region: DUF464; pfam04327 927704006694 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 927704006695 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 927704006696 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 927704006697 non-specific DNA binding site [nucleotide binding]; other site 927704006698 salt bridge; other site 927704006699 sequence-specific DNA binding site [nucleotide binding]; other site 927704006700 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704006701 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 927704006702 Helix-turn-helix domain; Region: HTH_28; pfam13518 927704006703 Winged helix-turn helix; Region: HTH_29; pfam13551 927704006704 Integrase core domain; Region: rve; pfam00665 927704006705 Integrase core domain; Region: rve_2; pfam13333 927704006706 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 927704006707 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 927704006708 non-specific DNA binding site [nucleotide binding]; other site 927704006709 salt bridge; other site 927704006710 sequence-specific DNA binding site [nucleotide binding]; other site 927704006711 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 927704006712 Terpene synthase, N-terminal domain; Region: Terpene_synth; pfam01397 927704006713 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 927704006714 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 927704006715 UDP-galactopyranose mutase; Region: GLF; pfam03275 927704006716 Fic/DOC family; Region: Fic; cl00960 927704006717 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 927704006718 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 927704006719 putative NAD(P) binding site [chemical binding]; other site 927704006720 catalytic Zn binding site [ion binding]; other site 927704006721 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 927704006722 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 927704006723 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 927704006724 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 927704006725 substrate binding site [chemical binding]; other site 927704006726 hexamer interface [polypeptide binding]; other site 927704006727 metal binding site [ion binding]; metal-binding site 927704006728 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 927704006729 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 927704006730 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 927704006731 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 927704006732 substrate binding site [chemical binding]; other site 927704006733 hexamer interface [polypeptide binding]; other site 927704006734 metal binding site [ion binding]; metal-binding site 927704006735 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 927704006736 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 927704006737 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 927704006738 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 927704006739 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; cl15377 927704006740 FeS/SAM binding site; other site 927704006741 Radical SAM superfamily; Region: Radical_SAM; pfam04055 927704006742 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 927704006743 motif I; other site 927704006744 active site 927704006745 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 927704006746 active site 927704006747 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 927704006748 ATP binding site [chemical binding]; other site 927704006749 Phosphotransferase enzyme family; Region: APH; pfam01636 927704006750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 927704006751 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 927704006752 NAD(P) binding site [chemical binding]; other site 927704006753 active site 927704006754 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 927704006755 substrate binding site; other site 927704006756 dimer interface; other site 927704006757 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 927704006758 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 927704006759 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 927704006760 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 927704006761 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 927704006762 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 927704006763 active site 927704006764 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 927704006765 NAD(P) binding site [chemical binding]; other site 927704006766 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 927704006767 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 927704006768 Methyltransferase domain; Region: Methyltransf_22; pfam13383 927704006769 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 927704006770 active site 927704006771 putative glycosyl transferase; Provisional; Region: PRK10073 927704006772 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 927704006773 active site 927704006774 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 927704006775 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 927704006776 NAD binding site [chemical binding]; other site 927704006777 putative substrate binding site 2 [chemical binding]; other site 927704006778 putative substrate binding site 1 [chemical binding]; other site 927704006779 active site 927704006780 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 927704006781 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 927704006782 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 927704006783 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 927704006784 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 927704006785 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 927704006786 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 927704006787 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 927704006788 Methyltransferase domain; Region: Methyltransf_23; pfam13489 927704006789 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 927704006790 S-adenosylmethionine binding site [chemical binding]; other site 927704006791 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 927704006792 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 927704006793 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 927704006794 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 927704006795 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 927704006796 WbqC-like protein family; Region: WbqC; pfam08889 927704006797 pseudaminic acid synthase; Region: PseI; TIGR03586 927704006798 NeuB family; Region: NeuB; pfam03102 927704006799 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 927704006800 NeuB binding interface [polypeptide binding]; other site 927704006801 putative substrate binding site [chemical binding]; other site 927704006802 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 927704006803 ligand binding site; other site 927704006804 tetramer interface; other site 927704006805 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 927704006806 S-adenosylmethionine binding site [chemical binding]; other site 927704006807 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 927704006808 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 927704006809 inhibitor-cofactor binding pocket; inhibition site 927704006810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704006811 catalytic residue [active] 927704006812 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 927704006813 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 927704006814 NAD(P) binding site [chemical binding]; other site 927704006815 homodimer interface [polypeptide binding]; other site 927704006816 substrate binding site [chemical binding]; other site 927704006817 active site 927704006818 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 927704006819 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 927704006820 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 927704006821 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 927704006822 inhibitor-cofactor binding pocket; inhibition site 927704006823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704006824 catalytic residue [active] 927704006825 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; cd00384 927704006826 dimer interface [polypeptide binding]; other site 927704006827 active site 927704006828 Schiff base residues; other site 927704006829 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 927704006830 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 927704006831 active site 927704006832 SAM binding site [chemical binding]; other site 927704006833 homodimer interface [polypeptide binding]; other site 927704006834 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 927704006835 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 927704006836 active site 927704006837 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 927704006838 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 927704006839 domain interfaces; other site 927704006840 active site 927704006841 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 927704006842 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 927704006843 tRNA; other site 927704006844 putative tRNA binding site [nucleotide binding]; other site 927704006845 putative NADP binding site [chemical binding]; other site 927704006846 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 927704006847 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 927704006848 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 927704006849 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 927704006850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704006851 active site 927704006852 phosphorylation site [posttranslational modification] 927704006853 intermolecular recognition site; other site 927704006854 dimerization interface [polypeptide binding]; other site 927704006855 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 927704006856 DNA binding residues [nucleotide binding] 927704006857 dimerization interface [polypeptide binding]; other site 927704006858 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 927704006859 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 927704006860 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 927704006861 serine/threonine transporter SstT; Provisional; Region: PRK13628 927704006862 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 927704006863 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 927704006864 NADP binding site [chemical binding]; other site 927704006865 active site 927704006866 putative substrate binding site [chemical binding]; other site 927704006867 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 927704006868 dimerization interface [polypeptide binding]; other site 927704006869 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 927704006870 dimer interface [polypeptide binding]; other site 927704006871 phosphorylation site [posttranslational modification] 927704006872 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 927704006873 ATP binding site [chemical binding]; other site 927704006874 Mg2+ binding site [ion binding]; other site 927704006875 G-X-G motif; other site 927704006876 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 927704006877 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704006878 active site 927704006879 phosphorylation site [posttranslational modification] 927704006880 intermolecular recognition site; other site 927704006881 dimerization interface [polypeptide binding]; other site 927704006882 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 927704006883 DNA binding site [nucleotide binding] 927704006884 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 927704006885 active site 1 [active] 927704006886 active site 2 [active] 927704006887 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704006888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704006889 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 927704006890 dimerization interface [polypeptide binding]; other site 927704006891 Cache domain; Region: Cache_1; pfam02743 927704006892 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 927704006893 dimerization interface [polypeptide binding]; other site 927704006894 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704006895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704006896 metal binding site [ion binding]; metal-binding site 927704006897 active site 927704006898 I-site; other site 927704006899 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 927704006900 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 927704006901 homodimer interface [polypeptide binding]; other site 927704006902 oligonucleotide binding site [chemical binding]; other site 927704006903 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 927704006904 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 927704006905 FeS/SAM binding site; other site 927704006906 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 927704006907 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 927704006908 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 927704006909 Septum formation topological specificity factor MinE; Region: MinE; cl00538 927704006910 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 927704006911 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 927704006912 P-loop; other site 927704006913 ADP binding residues [chemical binding]; other site 927704006914 Switch I; other site 927704006915 Switch II; other site 927704006916 septum formation inhibitor; Reviewed; Region: minC; PRK00513 927704006917 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 927704006918 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 927704006919 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 927704006920 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 927704006921 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 927704006922 rod shape-determining protein MreC; Provisional; Region: PRK13922 927704006923 rod shape-determining protein MreC; Region: MreC; pfam04085 927704006924 rod shape-determining protein MreB; Provisional; Region: PRK13927 927704006925 MreB and similar proteins; Region: MreB_like; cd10225 927704006926 nucleotide binding site [chemical binding]; other site 927704006927 Mg binding site [ion binding]; other site 927704006928 putative protofilament interaction site [polypeptide binding]; other site 927704006929 RodZ interaction site [polypeptide binding]; other site 927704006930 hypothetical protein; Reviewed; Region: PRK00024 927704006931 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 927704006932 MPN+ (JAMM) motif; other site 927704006933 Zinc-binding site [ion binding]; other site 927704006934 Maf-like protein; Region: Maf; pfam02545 927704006935 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 927704006936 active site 927704006937 dimer interface [polypeptide binding]; other site 927704006938 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 927704006939 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 927704006940 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 927704006941 transmembrane helices; other site 927704006942 Uncharacterized conserved protein [Function unknown]; Region: COG3287 927704006943 FIST N domain; Region: FIST; pfam08495 927704006944 FIST C domain; Region: FIST_C; pfam10442 927704006945 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704006946 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704006947 metal binding site [ion binding]; metal-binding site 927704006948 active site 927704006949 I-site; other site 927704006950 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 927704006951 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 927704006952 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 927704006953 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 927704006954 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 927704006955 putative ATP binding site [chemical binding]; other site 927704006956 putative substrate interface [chemical binding]; other site 927704006957 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 927704006958 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 927704006959 nucleotide binding site [chemical binding]; other site 927704006960 SulA interaction site; other site 927704006961 GGGtGRT protein; Region: GGGtGRT; pfam14057 927704006962 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 927704006963 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 927704006964 phosphoglyceromutase; Provisional; Region: PRK05434 927704006965 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 927704006966 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 927704006967 triosephosphate isomerase; Provisional; Region: PRK14567 927704006968 substrate binding site [chemical binding]; other site 927704006969 dimer interface [polypeptide binding]; other site 927704006970 catalytic triad [active] 927704006971 Phosphoglycerate kinase; Region: PGK; pfam00162 927704006972 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 927704006973 substrate binding site [chemical binding]; other site 927704006974 hinge regions; other site 927704006975 ADP binding site [chemical binding]; other site 927704006976 catalytic site [active] 927704006977 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 927704006978 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 927704006979 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 927704006980 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 927704006981 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 927704006982 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 927704006983 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 927704006984 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 927704006985 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 927704006986 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704006987 Walker A/P-loop; other site 927704006988 ATP binding site [chemical binding]; other site 927704006989 Q-loop/lid; other site 927704006990 ABC transporter signature motif; other site 927704006991 Walker B; other site 927704006992 D-loop; other site 927704006993 H-loop/switch region; other site 927704006994 Chemotaxis phosphatase CheX; Region: CheX; cl15816 927704006995 Response regulator receiver domain; Region: Response_reg; pfam00072 927704006996 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704006997 active site 927704006998 phosphorylation site [posttranslational modification] 927704006999 intermolecular recognition site; other site 927704007000 dimerization interface [polypeptide binding]; other site 927704007001 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 927704007002 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 927704007003 active site 927704007004 HIGH motif; other site 927704007005 dimer interface [polypeptide binding]; other site 927704007006 KMSKS motif; other site 927704007007 Cache domain; Region: Cache_1; pfam02743 927704007008 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 927704007009 dimerization interface [polypeptide binding]; other site 927704007010 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704007011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704007012 dimer interface [polypeptide binding]; other site 927704007013 putative CheW interface [polypeptide binding]; other site 927704007014 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 927704007015 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 927704007016 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 927704007017 catalytic residue [active] 927704007018 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 927704007019 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 927704007020 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 927704007021 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 927704007022 Melibiase; Region: Melibiase; pfam02065 927704007023 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 927704007024 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 927704007025 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 927704007026 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 927704007027 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 927704007028 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 927704007029 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 927704007030 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 927704007031 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 927704007032 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 927704007033 thiamine phosphate binding site [chemical binding]; other site 927704007034 active site 927704007035 pyrophosphate binding site [ion binding]; other site 927704007036 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 927704007037 substrate binding site [chemical binding]; other site 927704007038 dimer interface [polypeptide binding]; other site 927704007039 ATP binding site [chemical binding]; other site 927704007040 Predicted methyltransferases [General function prediction only]; Region: COG0313 927704007041 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 927704007042 putative SAM binding site [chemical binding]; other site 927704007043 putative homodimer interface [polypeptide binding]; other site 927704007044 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 927704007045 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 927704007046 S-adenosylmethionine binding site [chemical binding]; other site 927704007047 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 927704007048 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 927704007049 DNA polymerase III subunit delta'; Validated; Region: PRK08485 927704007050 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 927704007051 Protein of unknown function (DUF327); Region: DUF327; pfam03885 927704007052 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 927704007053 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 927704007054 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 927704007055 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 927704007056 catalytic residue [active] 927704007057 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 927704007058 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 927704007059 transmembrane helices; other site 927704007060 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 927704007061 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 927704007062 Nitrogen regulatory protein P-II; Region: P-II; smart00938 927704007063 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 927704007064 trimer interface [polypeptide binding]; other site 927704007065 active site 927704007066 substrate binding site [chemical binding]; other site 927704007067 CoA binding site [chemical binding]; other site 927704007068 Tetratricopeptide repeat; Region: TPR_12; pfam13424 927704007069 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 927704007070 binding surface 927704007071 Tetratricopeptide repeat; Region: TPR_16; pfam13432 927704007072 TPR motif; other site 927704007073 TPR repeat; Region: TPR_11; pfam13414 927704007074 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 927704007075 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 927704007076 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 927704007077 Probable Catalytic site; other site 927704007078 metal-binding site 927704007079 TPR repeat; Region: TPR_11; pfam13414 927704007080 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 927704007081 binding surface 927704007082 TPR motif; other site 927704007083 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 927704007084 Protein of unknown function (DUF563); Region: DUF563; pfam04577 927704007085 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 927704007086 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 927704007087 TPR motif; other site 927704007088 binding surface 927704007089 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 927704007090 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 927704007091 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 927704007092 putative metal binding site; other site 927704007093 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 927704007094 putative metal binding site; other site 927704007095 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 927704007096 putative metal binding site; other site 927704007097 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 927704007098 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 927704007099 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 927704007100 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 927704007101 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 927704007102 putative metal binding site; other site 927704007103 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 927704007104 putative metal binding site; other site 927704007105 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 927704007106 putative metal binding site; other site 927704007107 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 927704007108 Tetratricopeptide repeat; Region: TPR_12; pfam13424 927704007109 TPR motif; other site 927704007110 binding surface 927704007111 Flagellar protein FliT; Region: FliT; pfam05400 927704007112 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 927704007113 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 927704007114 FlaG protein; Region: FlaG; pfam03646 927704007115 Global regulator protein family; Region: CsrA; pfam02599 927704007116 flagellar assembly protein FliW; Provisional; Region: PRK13285 927704007117 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 927704007118 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 927704007119 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 927704007120 FlgN protein; Region: FlgN; pfam05130 927704007121 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 927704007122 flagellar operon protein TIGR03826; Region: YvyF 927704007123 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 927704007124 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 927704007125 Surface antigen; Region: Bac_surface_Ag; pfam01103 927704007126 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 927704007127 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 927704007128 flagellin; Provisional; Region: PRK12808 927704007129 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 927704007130 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 927704007131 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 927704007132 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 927704007133 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 927704007134 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 927704007135 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 927704007136 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 927704007137 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 927704007138 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 927704007139 trimer interface [polypeptide binding]; other site 927704007140 dimer interface [polypeptide binding]; other site 927704007141 putative active site [active] 927704007142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704007143 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 927704007144 Probable transposase; Region: OrfB_IS605; pfam01385 927704007145 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704007146 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 927704007147 DNA binding residues [nucleotide binding] 927704007148 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 927704007149 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 927704007150 catalytic residues [active] 927704007151 catalytic nucleophile [active] 927704007152 histidinol-phosphatase; Provisional; Region: PRK05588 927704007153 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 927704007154 active site 927704007155 TSCPD domain; Region: TSCPD; cl14834 927704007156 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 927704007157 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 927704007158 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 927704007159 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 927704007160 Mechanosensitive ion channel; Region: MS_channel; pfam00924 927704007161 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK14704 927704007162 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 927704007163 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 927704007164 FeS/SAM binding site; other site 927704007165 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 927704007166 Ligand Binding Site [chemical binding]; other site 927704007167 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 927704007168 Ligand Binding Site [chemical binding]; other site 927704007169 threonine dehydratase; Provisional; Region: PRK08198 927704007170 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 927704007171 tetramer interface [polypeptide binding]; other site 927704007172 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704007173 catalytic residue [active] 927704007174 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 927704007175 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 927704007176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 927704007177 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 927704007178 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 927704007179 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 927704007180 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704007181 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 927704007182 non-specific DNA binding site [nucleotide binding]; other site 927704007183 salt bridge; other site 927704007184 sequence-specific DNA binding site [nucleotide binding]; other site 927704007185 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 927704007186 non-specific DNA binding site [nucleotide binding]; other site 927704007187 salt bridge; other site 927704007188 sequence-specific DNA binding site [nucleotide binding]; other site 927704007189 Low molecular weight phosphatase family; Region: LMWPc; cl00105 927704007190 active site 927704007191 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 927704007192 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 927704007193 active site 927704007194 motif I; other site 927704007195 motif II; other site 927704007196 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 927704007197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704007198 Response regulator receiver domain; Region: Response_reg; pfam00072 927704007199 active site 927704007200 phosphorylation site [posttranslational modification] 927704007201 intermolecular recognition site; other site 927704007202 dimerization interface [polypeptide binding]; other site 927704007203 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 927704007204 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 927704007205 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 927704007206 Histidine kinase; Region: His_kinase; pfam06580 927704007207 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 927704007208 ATP binding site [chemical binding]; other site 927704007209 Mg2+ binding site [ion binding]; other site 927704007210 G-X-G motif; other site 927704007211 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 927704007212 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 927704007213 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 927704007214 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704007215 dimer interface [polypeptide binding]; other site 927704007216 conserved gate region; other site 927704007217 putative PBP binding loops; other site 927704007218 ABC-ATPase subunit interface; other site 927704007219 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704007220 dimer interface [polypeptide binding]; other site 927704007221 conserved gate region; other site 927704007222 putative PBP binding loops; other site 927704007223 ABC-ATPase subunit interface; other site 927704007224 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 927704007225 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704007226 Walker A/P-loop; other site 927704007227 ATP binding site [chemical binding]; other site 927704007228 Q-loop/lid; other site 927704007229 ABC transporter signature motif; other site 927704007230 Walker B; other site 927704007231 D-loop; other site 927704007232 H-loop/switch region; other site 927704007233 TOBE domain; Region: TOBE_2; pfam08402 927704007234 Fic family protein [Function unknown]; Region: COG3177 927704007235 Fic/DOC family; Region: Fic; pfam02661 927704007236 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 927704007237 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 927704007238 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 927704007239 substrate binding site [chemical binding]; other site 927704007240 dimer interface [polypeptide binding]; other site 927704007241 ATP binding site [chemical binding]; other site 927704007242 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 927704007243 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 927704007244 putative substrate translocation pore; other site 927704007245 Transcriptional regulators [Transcription]; Region: PurR; COG1609 927704007246 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 927704007247 DNA binding site [nucleotide binding] 927704007248 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 927704007249 ligand binding site [chemical binding]; other site 927704007250 dimerization interface [polypeptide binding]; other site 927704007251 D-ribose pyranase; Provisional; Region: PRK11797 927704007252 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 927704007253 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 927704007254 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 927704007255 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 927704007256 active site 927704007257 metal binding site [ion binding]; metal-binding site 927704007258 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 927704007259 SnoaL-like domain; Region: SnoaL_3; pfam13474 927704007260 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704007261 metal binding site [ion binding]; metal-binding site 927704007262 active site 927704007263 I-site; other site 927704007264 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 927704007265 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704007266 dimer interface [polypeptide binding]; other site 927704007267 putative CheW interface [polypeptide binding]; other site 927704007268 Uncharacterized conserved protein [Function unknown]; Region: COG3589 927704007269 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 927704007270 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 927704007271 dimerization interface [polypeptide binding]; other site 927704007272 putative DNA binding site [nucleotide binding]; other site 927704007273 putative Zn2+ binding site [ion binding]; other site 927704007274 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 927704007275 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 927704007276 NlpC/P60 family; Region: NLPC_P60; pfam00877 927704007277 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 927704007278 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 927704007279 potential frameshift: common BLAST hit: gi|258515955|ref|YP_003192177.1| Superfamily I DNA and RNA helicase and helicase subunits-like protein 927704007280 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 927704007281 AAA domain; Region: AAA_12; pfam13087 927704007282 DNA helicase, putative; Region: TIGR00376 927704007283 LPP20 lipoprotein; Region: LPP20; pfam02169 927704007284 Homoserine O-succinyltransferase; Region: HTS; pfam04204 927704007285 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 927704007286 proposed active site lysine [active] 927704007287 conserved cys residue [active] 927704007288 Terminase small subunit; Region: Terminase_2; pfam03592 927704007289 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 927704007290 sodium/hydrogen exchanger 3; Region: b_cpa1; TIGR00840 927704007291 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 927704007292 Walker A motif; other site 927704007293 ATP binding site [chemical binding]; other site 927704007294 Walker B motif; other site 927704007295 arginine finger; other site 927704007296 Helix-turn-helix domain; Region: HTH_36; pfam13730 927704007297 phage conserved hypothetical protein, C-terminal domain; Region: phg_TIGR02220 927704007298 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704007299 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 927704007300 non-specific DNA binding site [nucleotide binding]; other site 927704007301 salt bridge; other site 927704007302 sequence-specific DNA binding site [nucleotide binding]; other site 927704007303 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704007304 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 927704007305 non-specific DNA binding site [nucleotide binding]; other site 927704007306 salt bridge; other site 927704007307 sequence-specific DNA binding site [nucleotide binding]; other site 927704007308 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 927704007309 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 927704007310 catalytic residues [active] 927704007311 catalytic nucleophile [active] 927704007312 Recombinase; Region: Recombinase; pfam07508 927704007313 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 927704007314 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 927704007315 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 927704007316 G1 box; other site 927704007317 GTP/Mg2+ binding site [chemical binding]; other site 927704007318 Switch I region; other site 927704007319 G2 box; other site 927704007320 Switch II region; other site 927704007321 G3 box; other site 927704007322 G4 box; other site 927704007323 G5 box; other site 927704007324 histidinol-phosphatase; Provisional; Region: PRK07328 927704007325 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 927704007326 active site 927704007327 dimer interface [polypeptide binding]; other site 927704007328 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 927704007329 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 927704007330 active site 927704007331 motif I; other site 927704007332 motif II; other site 927704007333 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 927704007334 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 927704007335 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 927704007336 active site 927704007337 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 927704007338 substrate binding site [chemical binding]; other site 927704007339 catalytic residues [active] 927704007340 dimer interface [polypeptide binding]; other site 927704007341 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 927704007342 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 927704007343 putative allantoin catabolism protein; Region: ura-cupin; TIGR03214 927704007344 Cupin domain; Region: Cupin_2; cl17218 927704007345 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 927704007346 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704007347 dimer interface [polypeptide binding]; other site 927704007348 conserved gate region; other site 927704007349 putative PBP binding loops; other site 927704007350 ABC-ATPase subunit interface; other site 927704007351 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 927704007352 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 927704007353 membrane-bound complex binding site; other site 927704007354 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 927704007355 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 927704007356 Walker A/P-loop; other site 927704007357 ATP binding site [chemical binding]; other site 927704007358 Q-loop/lid; other site 927704007359 ABC transporter signature motif; other site 927704007360 Walker B; other site 927704007361 D-loop; other site 927704007362 H-loop/switch region; other site 927704007363 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 927704007364 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704007365 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704007366 metal binding site [ion binding]; metal-binding site 927704007367 active site 927704007368 I-site; other site 927704007369 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704007370 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704007371 metal binding site [ion binding]; metal-binding site 927704007372 active site 927704007373 I-site; other site 927704007374 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704007375 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704007376 metal binding site [ion binding]; metal-binding site 927704007377 active site 927704007378 I-site; other site 927704007379 6-phosphofructokinase; Provisional; Region: PRK03202 927704007380 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 927704007381 active site 927704007382 ADP/pyrophosphate binding site [chemical binding]; other site 927704007383 dimerization interface [polypeptide binding]; other site 927704007384 allosteric effector site; other site 927704007385 fructose-1,6-bisphosphate binding site; other site 927704007386 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 927704007387 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 927704007388 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 927704007389 active site 927704007390 phosphorylation site [posttranslational modification] 927704007391 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 927704007392 active pocket/dimerization site; other site 927704007393 active site 927704007394 phosphorylation site [posttranslational modification] 927704007395 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 927704007396 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 927704007397 Walker A motif; other site 927704007398 ATP binding site [chemical binding]; other site 927704007399 Walker B motif; other site 927704007400 arginine finger; other site 927704007401 Transcriptional antiterminator [Transcription]; Region: COG3933 927704007402 PRD domain; Region: PRD; pfam00874 927704007403 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 927704007404 active pocket/dimerization site; other site 927704007405 active site 927704007406 phosphorylation site [posttranslational modification] 927704007407 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 927704007408 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 927704007409 binding surface 927704007410 TPR motif; other site 927704007411 TPR repeat; Region: TPR_11; pfam13414 927704007412 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 927704007413 binding surface 927704007414 TPR repeat; Region: TPR_11; pfam13414 927704007415 TPR motif; other site 927704007416 Cupin domain; Region: Cupin_2; cl17218 927704007417 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 927704007418 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 927704007419 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704007420 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704007421 metal binding site [ion binding]; metal-binding site 927704007422 active site 927704007423 I-site; other site 927704007424 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 927704007425 active site 927704007426 substrate binding site [chemical binding]; other site 927704007427 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 927704007428 metal binding site [ion binding]; metal-binding site 927704007429 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 927704007430 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 927704007431 Uncharacterized conserved protein [Function unknown]; Region: COG1434 927704007432 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 927704007433 putative active site [active] 927704007434 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 927704007435 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 927704007436 Walker A motif; other site 927704007437 ATP binding site [chemical binding]; other site 927704007438 Walker B motif; other site 927704007439 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 927704007440 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 927704007441 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 927704007442 active site 927704007443 catalytic site [active] 927704007444 substrate binding site [chemical binding]; other site 927704007445 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 927704007446 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 927704007447 active site 927704007448 homodimer interface [polypeptide binding]; other site 927704007449 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 927704007450 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 927704007451 Mg++ binding site [ion binding]; other site 927704007452 putative catalytic motif [active] 927704007453 substrate binding site [chemical binding]; other site 927704007454 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 927704007455 catalytic motif [active] 927704007456 Zn binding site [ion binding]; other site 927704007457 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 927704007458 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 927704007459 Predicted permeases [General function prediction only]; Region: COG0795 927704007460 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 927704007461 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 927704007462 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 927704007463 Walker A/P-loop; other site 927704007464 ATP binding site [chemical binding]; other site 927704007465 Q-loop/lid; other site 927704007466 ABC transporter signature motif; other site 927704007467 Walker B; other site 927704007468 D-loop; other site 927704007469 H-loop/switch region; other site 927704007470 OstA-like protein; Region: OstA; cl00844 927704007471 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 927704007472 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 927704007473 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 927704007474 putative acyl-acceptor binding pocket; other site 927704007475 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 927704007476 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 927704007477 active site 927704007478 motif I; other site 927704007479 motif II; other site 927704007480 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 927704007481 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 927704007482 putative active site [active] 927704007483 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 927704007484 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 927704007485 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 927704007486 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 927704007487 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 927704007488 Ligand binding site; other site 927704007489 oligomer interface; other site 927704007490 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 927704007491 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 927704007492 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 927704007493 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 927704007494 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 927704007495 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 927704007496 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 927704007497 Walker A/P-loop; other site 927704007498 ATP binding site [chemical binding]; other site 927704007499 Q-loop/lid; other site 927704007500 ABC transporter signature motif; other site 927704007501 Walker B; other site 927704007502 D-loop; other site 927704007503 H-loop/switch region; other site 927704007504 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 927704007505 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 927704007506 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 927704007507 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 927704007508 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 927704007509 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 927704007510 active site 927704007511 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 927704007512 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 927704007513 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 927704007514 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 927704007515 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 927704007516 putative acyl-acceptor binding pocket; other site 927704007517 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 927704007518 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 927704007519 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 927704007520 trimer interface [polypeptide binding]; other site 927704007521 active site 927704007522 UDP-GlcNAc binding site [chemical binding]; other site 927704007523 lipid binding site [chemical binding]; lipid-binding site 927704007524 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 927704007525 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 927704007526 periplasmic chaperone; Provisional; Region: PRK10780 927704007527 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 927704007528 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 927704007529 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 927704007530 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 927704007531 Surface antigen; Region: Bac_surface_Ag; pfam01103 927704007532 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 927704007533 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 927704007534 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 927704007535 Protein of unknown function; Region: DUF3971; pfam13116 927704007536 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 927704007537 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 927704007538 Family of unknown function (DUF490); Region: DUF490; pfam04357 927704007539 Outer membrane efflux protein; Region: OEP; pfam02321 927704007540 Outer membrane efflux protein; Region: OEP; pfam02321 927704007541 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 927704007542 mce related protein; Region: MCE; pfam02470 927704007543 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 927704007544 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 927704007545 Walker A/P-loop; other site 927704007546 ATP binding site [chemical binding]; other site 927704007547 Q-loop/lid; other site 927704007548 ABC transporter signature motif; other site 927704007549 Walker B; other site 927704007550 D-loop; other site 927704007551 H-loop/switch region; other site 927704007552 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 927704007553 Permease; Region: Permease; pfam02405 927704007554 Transposase domain (DUF772); Region: DUF772; pfam05598 927704007555 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 927704007556 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 927704007557 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 927704007558 oligomerization interface [polypeptide binding]; other site 927704007559 active site 927704007560 metal binding site [ion binding]; metal-binding site 927704007561 Uncharacterized conserved protein [Function unknown]; Region: COG5495 927704007562 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 927704007563 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 927704007564 alanine racemase; Reviewed; Region: alr; PRK00053 927704007565 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 927704007566 active site 927704007567 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 927704007568 dimer interface [polypeptide binding]; other site 927704007569 substrate binding site [chemical binding]; other site 927704007570 catalytic residues [active] 927704007571 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 927704007572 trimer interface [polypeptide binding]; other site 927704007573 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 927704007574 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 927704007575 Predicted amidohydrolase [General function prediction only]; Region: COG0388 927704007576 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 927704007577 putative active site [active] 927704007578 catalytic triad [active] 927704007579 putative dimer interface [polypeptide binding]; other site 927704007580 GTP-binding protein YchF; Reviewed; Region: PRK09601 927704007581 YchF GTPase; Region: YchF; cd01900 927704007582 G1 box; other site 927704007583 GTP/Mg2+ binding site [chemical binding]; other site 927704007584 Switch I region; other site 927704007585 G2 box; other site 927704007586 Switch II region; other site 927704007587 G3 box; other site 927704007588 G4 box; other site 927704007589 G5 box; other site 927704007590 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 927704007591 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 927704007592 active site 927704007593 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 927704007594 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 927704007595 dimer interface [polypeptide binding]; other site 927704007596 active site 927704007597 glycine-pyridoxal phosphate binding site [chemical binding]; other site 927704007598 folate binding site [chemical binding]; other site 927704007599 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 927704007600 glycerol kinase; Provisional; Region: glpK; PRK00047 927704007601 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 927704007602 N- and C-terminal domain interface [polypeptide binding]; other site 927704007603 active site 927704007604 MgATP binding site [chemical binding]; other site 927704007605 catalytic site [active] 927704007606 metal binding site [ion binding]; metal-binding site 927704007607 glycerol binding site [chemical binding]; other site 927704007608 homotetramer interface [polypeptide binding]; other site 927704007609 homodimer interface [polypeptide binding]; other site 927704007610 FBP binding site [chemical binding]; other site 927704007611 protein IIAGlc interface [polypeptide binding]; other site 927704007612 S-layer homology domain; Region: SLH; pfam00395 927704007613 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 927704007614 phosphodiesterase YaeI; Provisional; Region: PRK11340 927704007615 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 927704007616 putative active site [active] 927704007617 putative metal binding site [ion binding]; other site 927704007618 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 927704007619 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 927704007620 putative dimer interface [polypeptide binding]; other site 927704007621 [2Fe-2S] cluster binding site [ion binding]; other site 927704007622 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 927704007623 SLBB domain; Region: SLBB; pfam10531 927704007624 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 927704007625 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 927704007626 catalytic loop [active] 927704007627 iron binding site [ion binding]; other site 927704007628 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 927704007629 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 927704007630 4Fe-4S binding domain; Region: Fer4; pfam00037 927704007631 4Fe-4S binding domain; Region: Fer4; pfam00037 927704007632 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 927704007633 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 927704007634 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 927704007635 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 927704007636 motif II; other site 927704007637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704007638 Response regulator receiver domain; Region: Response_reg; pfam00072 927704007639 active site 927704007640 phosphorylation site [posttranslational modification] 927704007641 intermolecular recognition site; other site 927704007642 dimerization interface [polypeptide binding]; other site 927704007643 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704007644 metal binding site [ion binding]; metal-binding site 927704007645 active site 927704007646 I-site; other site 927704007647 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 927704007648 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 927704007649 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 927704007650 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 927704007651 ligand binding site [chemical binding]; other site 927704007652 flexible hinge region; other site 927704007653 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 927704007654 putative switch regulator; other site 927704007655 non-specific DNA interactions [nucleotide binding]; other site 927704007656 DNA binding site [nucleotide binding] 927704007657 sequence specific DNA binding site [nucleotide binding]; other site 927704007658 putative cAMP binding site [chemical binding]; other site 927704007659 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 927704007660 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 927704007661 active site 927704007662 NTP binding site [chemical binding]; other site 927704007663 metal binding triad [ion binding]; metal-binding site 927704007664 antibiotic binding site [chemical binding]; other site 927704007665 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704007666 Probable transposase; Region: OrfB_IS605; pfam01385 927704007667 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704007668 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 927704007669 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 927704007670 DNA binding residues [nucleotide binding] 927704007671 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 927704007672 catalytic residues [active] 927704007673 catalytic nucleophile [active] 927704007674 Protein of unknown function (DUF535); Region: DUF535; cl01128 927704007675 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 927704007676 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 927704007677 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 927704007678 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 927704007679 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 927704007680 putative NAD(P) binding site [chemical binding]; other site 927704007681 active site 927704007682 putative substrate binding site [chemical binding]; other site 927704007683 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 927704007684 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 927704007685 LDH/MDH dimer interface [polypeptide binding]; other site 927704007686 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 927704007687 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 927704007688 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 927704007689 L-lactate permease; Region: Lactate_perm; cl00701 927704007690 Sulfatase; Region: Sulfatase; cl17466 927704007691 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 927704007692 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 927704007693 active site 927704007694 motif I; other site 927704007695 motif II; other site 927704007696 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 927704007697 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 927704007698 NADP binding site [chemical binding]; other site 927704007699 homopentamer interface [polypeptide binding]; other site 927704007700 substrate binding site [chemical binding]; other site 927704007701 active site 927704007702 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 927704007703 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 927704007704 putative ribose interaction site [chemical binding]; other site 927704007705 putative ADP binding site [chemical binding]; other site 927704007706 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 927704007707 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 927704007708 putative active site [active] 927704007709 Sulfatase; Region: Sulfatase; cl17466 927704007710 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 927704007711 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 927704007712 putative active site [active] 927704007713 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 927704007714 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 927704007715 active site 927704007716 nucleotide binding site [chemical binding]; other site 927704007717 HIGH motif; other site 927704007718 KMSKS motif; other site 927704007719 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 927704007720 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 927704007721 putative ribose interaction site [chemical binding]; other site 927704007722 putative ADP binding site [chemical binding]; other site 927704007723 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 927704007724 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 927704007725 Aspartase; Region: Aspartase; cd01357 927704007726 active sites [active] 927704007727 tetramer interface [polypeptide binding]; other site 927704007728 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 927704007729 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 927704007730 transmembrane helices; other site 927704007731 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 927704007732 Transposase domain (DUF772); Region: DUF772; pfam05598 927704007733 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 927704007734 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 927704007735 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 927704007736 ATP binding site [chemical binding]; other site 927704007737 Mg2+ binding site [ion binding]; other site 927704007738 G-X-G motif; other site 927704007739 Response regulator receiver domain; Region: Response_reg; pfam00072 927704007740 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704007741 active site 927704007742 phosphorylation site [posttranslational modification] 927704007743 intermolecular recognition site; other site 927704007744 dimerization interface [polypeptide binding]; other site 927704007745 YcbB domain; Region: YcbB; pfam08664 927704007746 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 927704007747 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 927704007748 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 927704007749 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 927704007750 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 927704007751 dimerization domain swap beta strand [polypeptide binding]; other site 927704007752 regulatory protein interface [polypeptide binding]; other site 927704007753 active site 927704007754 regulatory phosphorylation site [posttranslational modification]; other site 927704007755 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 927704007756 dimerization domain swap beta strand [polypeptide binding]; other site 927704007757 regulatory protein interface [polypeptide binding]; other site 927704007758 active site 927704007759 regulatory phosphorylation site [posttranslational modification]; other site 927704007760 Nif-specific regulatory protein; Region: nifA; TIGR01817 927704007761 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 927704007762 putative active site [active] 927704007763 heme pocket [chemical binding]; other site 927704007764 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 927704007765 Walker A motif; other site 927704007766 ATP binding site [chemical binding]; other site 927704007767 Walker B motif; other site 927704007768 arginine finger; other site 927704007769 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 927704007770 TPR motif; other site 927704007771 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 927704007772 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 927704007773 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 927704007774 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 927704007775 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 927704007776 Resolvase, N terminal domain; Region: Resolvase; pfam00239 927704007777 catalytic residues [active] 927704007778 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 927704007779 UDP-glucose 4-epimerase; Region: PLN02240 927704007780 NAD binding site [chemical binding]; other site 927704007781 homodimer interface [polypeptide binding]; other site 927704007782 active site 927704007783 substrate binding site [chemical binding]; other site 927704007784 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 927704007785 colanic acid exporter; Provisional; Region: PRK10459 927704007786 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 927704007787 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 927704007788 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 927704007789 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 927704007790 putative NAD(P) binding site [chemical binding]; other site 927704007791 active site 927704007792 putative substrate binding site [chemical binding]; other site 927704007793 RelB antitoxin; Region: RelB; cl01171 927704007794 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 927704007795 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 927704007796 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 927704007797 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 927704007798 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 927704007799 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 927704007800 putative ADP-binding pocket [chemical binding]; other site 927704007801 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 927704007802 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 927704007803 active site 927704007804 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 927704007805 putative ADP-binding pocket [chemical binding]; other site 927704007806 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 927704007807 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 927704007808 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 927704007809 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 927704007810 Bacterial sugar transferase; Region: Bac_transf; pfam02397 927704007811 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 927704007812 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 927704007813 inhibitor-cofactor binding pocket; inhibition site 927704007814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704007815 catalytic residue [active] 927704007816 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 927704007817 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 927704007818 NAD(P) binding site [chemical binding]; other site 927704007819 homodimer interface [polypeptide binding]; other site 927704007820 substrate binding site [chemical binding]; other site 927704007821 active site 927704007822 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 927704007823 Chain length determinant protein; Region: Wzz; pfam02706 927704007824 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 927704007825 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704007826 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 927704007827 non-specific DNA binding site [nucleotide binding]; other site 927704007828 salt bridge; other site 927704007829 sequence-specific DNA binding site [nucleotide binding]; other site 927704007830 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 927704007831 D-galactonate transporter; Region: 2A0114; TIGR00893 927704007832 putative substrate translocation pore; other site 927704007833 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 927704007834 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 927704007835 RelB antitoxin; Region: RelB; cl01171 927704007836 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 927704007837 metal ion-dependent adhesion site (MIDAS); other site 927704007838 MoxR-like ATPases [General function prediction only]; Region: COG0714 927704007839 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 927704007840 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 927704007841 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 927704007842 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 927704007843 FeS/SAM binding site; other site 927704007844 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 927704007845 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 927704007846 FeS/SAM binding site; other site 927704007847 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 927704007848 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 927704007849 FeS/SAM binding site; other site 927704007850 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 927704007851 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 927704007852 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 927704007853 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 927704007854 substrate binding pocket [chemical binding]; other site 927704007855 membrane-bound complex binding site; other site 927704007856 hinge residues; other site 927704007857 Response regulator receiver domain; Region: Response_reg; pfam00072 927704007858 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704007859 active site 927704007860 phosphorylation site [posttranslational modification] 927704007861 intermolecular recognition site; other site 927704007862 dimerization interface [polypeptide binding]; other site 927704007863 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 927704007864 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 927704007865 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 927704007866 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 927704007867 dimer interface [polypeptide binding]; other site 927704007868 phosphorylation site [posttranslational modification] 927704007869 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 927704007870 ATP binding site [chemical binding]; other site 927704007871 Mg2+ binding site [ion binding]; other site 927704007872 G-X-G motif; other site 927704007873 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704007874 active site 927704007875 phosphorylation site [posttranslational modification] 927704007876 intermolecular recognition site; other site 927704007877 dimerization interface [polypeptide binding]; other site 927704007878 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 927704007879 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 927704007880 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 927704007881 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 927704007882 Protein of unknown function (DUF972); Region: DUF972; pfam06156 927704007883 X25 domain of Bacillus acidopullulyticus pullulanase and similar proteins; Region: X25_BaPul_like; cd12962 927704007884 X25 domain of Bacillus acidopullulyticus pullulanase and similar proteins; Region: X25_BaPul_like; cd12962 927704007885 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 927704007886 homodimer interface [polypeptide binding]; other site 927704007887 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 927704007888 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 927704007889 active site 927704007890 homodimer interface [polypeptide binding]; other site 927704007891 catalytic site [active] 927704007892 Aamy_C domain; Region: Aamy_C; smart00632 927704007893 S-layer homology domain; Region: SLH; pfam00395 927704007894 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 927704007895 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 927704007896 active site 927704007897 motif I; other site 927704007898 motif II; other site 927704007899 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 927704007900 motif II; other site 927704007901 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 927704007902 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 927704007903 Ca binding site [ion binding]; other site 927704007904 active site 927704007905 catalytic site [active] 927704007906 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 927704007907 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 927704007908 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 927704007909 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 927704007910 active site turn [active] 927704007911 phosphorylation site [posttranslational modification] 927704007912 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 927704007913 HPr interaction site; other site 927704007914 glycerol kinase (GK) interaction site [polypeptide binding]; other site 927704007915 active site 927704007916 phosphorylation site [posttranslational modification] 927704007917 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 927704007918 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 927704007919 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 927704007920 putative active site [active] 927704007921 Helix-turn-helix domain; Region: HTH_16; pfam12645 927704007922 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 927704007923 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 927704007924 DNA binding residues [nucleotide binding] 927704007925 Transcriptional regulators [Transcription]; Region: PurR; COG1609 927704007926 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 927704007927 DNA binding site [nucleotide binding] 927704007928 domain linker motif; other site 927704007929 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 927704007930 dimerization interface [polypeptide binding]; other site 927704007931 ligand binding site [chemical binding]; other site 927704007932 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 927704007933 ligand binding site [chemical binding]; other site 927704007934 active site 927704007935 UGI interface [polypeptide binding]; other site 927704007936 catalytic site [active] 927704007937 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 927704007938 catalytic center binding site [active] 927704007939 ATP binding site [chemical binding]; other site 927704007940 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 927704007941 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 927704007942 folate binding site [chemical binding]; other site 927704007943 NADP+ binding site [chemical binding]; other site 927704007944 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 927704007945 homooctamer interface [polypeptide binding]; other site 927704007946 active site 927704007947 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 927704007948 dihydropteroate synthase; Region: DHPS; TIGR01496 927704007949 substrate binding pocket [chemical binding]; other site 927704007950 dimer interface [polypeptide binding]; other site 927704007951 inhibitor binding site; inhibition site 927704007952 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 927704007953 GTP cyclohydrolase I; Provisional; Region: PLN03044 927704007954 active site 927704007955 putative hydrolase; Validated; Region: PRK09248 927704007956 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 927704007957 active site 927704007958 Bacteriophage peptidoglycan hydrolase; Region: Amidase_5; pfam05382 927704007959 L-arabinose isomerase; Provisional; Region: PRK02929 927704007960 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 927704007961 hexamer (dimer of trimers) interface [polypeptide binding]; other site 927704007962 trimer interface [polypeptide binding]; other site 927704007963 substrate binding site [chemical binding]; other site 927704007964 Mn binding site [ion binding]; other site 927704007965 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 927704007966 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 927704007967 putative N- and C-terminal domain interface [polypeptide binding]; other site 927704007968 putative active site [active] 927704007969 MgATP binding site [chemical binding]; other site 927704007970 catalytic site [active] 927704007971 metal binding site [ion binding]; metal-binding site 927704007972 putative carbohydrate binding site [chemical binding]; other site 927704007973 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 927704007974 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 927704007975 putative substrate translocation pore; other site 927704007976 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 927704007977 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704007978 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704007979 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 927704007980 dimerization interface [polypeptide binding]; other site 927704007981 Response regulator receiver domain; Region: Response_reg; pfam00072 927704007982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704007983 active site 927704007984 phosphorylation site [posttranslational modification] 927704007985 intermolecular recognition site; other site 927704007986 dimerization interface [polypeptide binding]; other site 927704007987 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704007988 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704007989 metal binding site [ion binding]; metal-binding site 927704007990 active site 927704007991 I-site; other site 927704007992 Cache domain; Region: Cache_1; pfam02743 927704007993 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 927704007994 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 927704007995 dimer interface [polypeptide binding]; other site 927704007996 phosphorylation site [posttranslational modification] 927704007997 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 927704007998 ATP binding site [chemical binding]; other site 927704007999 Mg2+ binding site [ion binding]; other site 927704008000 G-X-G motif; other site 927704008001 Response regulator receiver domain; Region: Response_reg; pfam00072 927704008002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704008003 active site 927704008004 phosphorylation site [posttranslational modification] 927704008005 intermolecular recognition site; other site 927704008006 dimerization interface [polypeptide binding]; other site 927704008007 Hpt domain; Region: Hpt; pfam01627 927704008008 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 927704008009 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 927704008010 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 927704008011 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 927704008012 substrate binding pocket [chemical binding]; other site 927704008013 membrane-bound complex binding site; other site 927704008014 hinge residues; other site 927704008015 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 927704008016 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 927704008017 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 927704008018 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 927704008019 4Fe-4S binding domain; Region: Fer4; pfam00037 927704008020 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 927704008021 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 927704008022 CysD dimerization site [polypeptide binding]; other site 927704008023 G1 box; other site 927704008024 putative GEF interaction site [polypeptide binding]; other site 927704008025 GTP/Mg2+ binding site [chemical binding]; other site 927704008026 Switch I region; other site 927704008027 G2 box; other site 927704008028 G3 box; other site 927704008029 Switch II region; other site 927704008030 G4 box; other site 927704008031 G5 box; other site 927704008032 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 927704008033 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 927704008034 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 927704008035 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 927704008036 Active Sites [active] 927704008037 Ferredoxin [Energy production and conversion]; Region: COG1146 927704008038 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 927704008039 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 927704008040 L-aspartate oxidase; Provisional; Region: PRK06175 927704008041 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 927704008042 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 927704008043 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704008044 Walker A/P-loop; other site 927704008045 ATP binding site [chemical binding]; other site 927704008046 Q-loop/lid; other site 927704008047 ABC transporter signature motif; other site 927704008048 Walker B; other site 927704008049 D-loop; other site 927704008050 H-loop/switch region; other site 927704008051 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 927704008052 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704008053 dimer interface [polypeptide binding]; other site 927704008054 conserved gate region; other site 927704008055 putative PBP binding loops; other site 927704008056 ABC-ATPase subunit interface; other site 927704008057 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 927704008058 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704008059 dimer interface [polypeptide binding]; other site 927704008060 conserved gate region; other site 927704008061 putative PBP binding loops; other site 927704008062 ABC-ATPase subunit interface; other site 927704008063 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 927704008064 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 927704008065 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 927704008066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 927704008067 Putative esterase; Region: Esterase; pfam00756 927704008068 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 927704008069 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 927704008070 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 927704008071 catalytic residue [active] 927704008072 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 927704008073 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 927704008074 Ligand Binding Site [chemical binding]; other site 927704008075 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 927704008076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704008077 active site 927704008078 phosphorylation site [posttranslational modification] 927704008079 intermolecular recognition site; other site 927704008080 dimerization interface [polypeptide binding]; other site 927704008081 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 927704008082 DNA binding site [nucleotide binding] 927704008083 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 927704008084 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 927704008085 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 927704008086 dimerization interface [polypeptide binding]; other site 927704008087 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 927704008088 dimer interface [polypeptide binding]; other site 927704008089 phosphorylation site [posttranslational modification] 927704008090 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 927704008091 ATP binding site [chemical binding]; other site 927704008092 Mg2+ binding site [ion binding]; other site 927704008093 G-X-G motif; other site 927704008094 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 927704008095 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 927704008096 homodimer interface [polypeptide binding]; other site 927704008097 substrate-cofactor binding pocket; other site 927704008098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704008099 catalytic residue [active] 927704008100 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704008101 ABC-ATPase subunit interface; other site 927704008102 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 927704008103 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 927704008104 Walker A/P-loop; other site 927704008105 ATP binding site [chemical binding]; other site 927704008106 Q-loop/lid; other site 927704008107 ABC transporter signature motif; other site 927704008108 Walker B; other site 927704008109 D-loop; other site 927704008110 H-loop/switch region; other site 927704008111 NIL domain; Region: NIL; pfam09383 927704008112 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 927704008113 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 927704008114 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 927704008115 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 927704008116 metal binding site [ion binding]; metal-binding site 927704008117 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 927704008118 aspartate racemase; Region: asp_race; TIGR00035 927704008119 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 927704008120 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 927704008121 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 927704008122 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 927704008123 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 927704008124 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 927704008125 B12 binding site [chemical binding]; other site 927704008126 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 927704008127 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 927704008128 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 927704008129 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 927704008130 catalytic loop [active] 927704008131 iron binding site [ion binding]; other site 927704008132 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 927704008133 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 927704008134 Monomethylamine methyltransferase MtmB; Region: MtmB; pfam05369 927704008135 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 927704008136 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 927704008137 B12 binding site [chemical binding]; other site 927704008138 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 927704008139 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 927704008140 Walker A/P-loop; other site 927704008141 ATP binding site [chemical binding]; other site 927704008142 Q-loop/lid; other site 927704008143 ABC transporter signature motif; other site 927704008144 Walker B; other site 927704008145 D-loop; other site 927704008146 H-loop/switch region; other site 927704008147 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 927704008148 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704008149 dimer interface [polypeptide binding]; other site 927704008150 conserved gate region; other site 927704008151 putative PBP binding loops; other site 927704008152 ABC-ATPase subunit interface; other site 927704008153 NMT1/THI5 like; Region: NMT1; pfam09084 927704008154 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 927704008155 membrane-bound complex binding site; other site 927704008156 hinge residues; other site 927704008157 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704008158 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704008159 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 927704008160 dimerization interface [polypeptide binding]; other site 927704008161 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 927704008162 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 927704008163 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 927704008164 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 927704008165 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 927704008166 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 927704008167 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 927704008168 nitrogenase iron protein; Region: nifH; TIGR01287 927704008169 Nucleotide-binding sites [chemical binding]; other site 927704008170 Walker A motif; other site 927704008171 Switch I region of nucleotide binding site; other site 927704008172 Fe4S4 binding sites [ion binding]; other site 927704008173 Switch II region of nucleotide binding site; other site 927704008174 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 927704008175 FeS/SAM binding site; other site 927704008176 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 927704008177 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 927704008178 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 927704008179 dimer interface [polypeptide binding]; other site 927704008180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704008181 catalytic residue [active] 927704008182 cystathionine beta-lyase; Provisional; Region: PRK07671 927704008183 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 927704008184 homodimer interface [polypeptide binding]; other site 927704008185 substrate-cofactor binding pocket; other site 927704008186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704008187 catalytic residue [active] 927704008188 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 927704008189 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 927704008190 S-layer homology domain; Region: SLH; pfam00395 927704008191 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 927704008192 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 927704008193 active site 927704008194 metal binding site [ion binding]; metal-binding site 927704008195 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 927704008196 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 927704008197 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 927704008198 active site 927704008199 metal binding site [ion binding]; metal-binding site 927704008200 DNA binding site [nucleotide binding] 927704008201 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 927704008202 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 927704008203 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704008204 Walker A/P-loop; other site 927704008205 ATP binding site [chemical binding]; other site 927704008206 Q-loop/lid; other site 927704008207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704008208 ABC transporter signature motif; other site 927704008209 Walker B; other site 927704008210 D-loop; other site 927704008211 H-loop/switch region; other site 927704008212 S-layer homology domain; Region: SLH; pfam00395 927704008213 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 927704008214 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 927704008215 glutamate carboxypeptidase; Reviewed; Region: PRK06133 927704008216 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 927704008217 metal binding site [ion binding]; metal-binding site 927704008218 dimer interface [polypeptide binding]; other site 927704008219 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704008220 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704008221 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 927704008222 dimerization interface [polypeptide binding]; other site 927704008223 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 927704008224 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 927704008225 aspartate racemase; Region: asp_race; TIGR00035 927704008226 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704008227 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704008228 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 927704008229 dimerization interface [polypeptide binding]; other site 927704008230 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 927704008231 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 927704008232 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 927704008233 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 927704008234 [4Fe-4S] binding site [ion binding]; other site 927704008235 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 927704008236 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 927704008237 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 927704008238 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 927704008239 molybdopterin cofactor binding site; other site 927704008240 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 927704008241 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 927704008242 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 927704008243 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 927704008244 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 927704008245 ligand binding site [chemical binding]; other site 927704008246 flexible hinge region; other site 927704008247 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 927704008248 putative switch regulator; other site 927704008249 non-specific DNA interactions [nucleotide binding]; other site 927704008250 DNA binding site [nucleotide binding] 927704008251 sequence specific DNA binding site [nucleotide binding]; other site 927704008252 putative cAMP binding site [chemical binding]; other site 927704008253 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 927704008254 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 927704008255 putative substrate translocation pore; other site 927704008256 domain_subunit interface; other site 927704008257 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 927704008258 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 927704008259 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 927704008260 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 927704008261 4Fe-4S binding domain; Region: Fer4; pfam00037 927704008262 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 927704008263 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 927704008264 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 927704008265 phosphate binding site [ion binding]; other site 927704008266 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 927704008267 putative active site [active] 927704008268 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 927704008269 Peptidase family M23; Region: Peptidase_M23; pfam01551 927704008270 ParB-like nuclease domain; Region: ParBc; pfam02195 927704008271 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 927704008272 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 927704008273 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008274 P-loop; other site 927704008275 Magnesium ion binding site [ion binding]; other site 927704008276 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008277 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 927704008278 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 927704008279 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 927704008280 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 927704008281 substrate binding pocket [chemical binding]; other site 927704008282 dihydropteroate synthase; Region: DHPS; TIGR01496 927704008283 dimer interface [polypeptide binding]; other site 927704008284 inhibitor binding site; inhibition site 927704008285 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 927704008286 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 927704008287 B12 binding site [chemical binding]; other site 927704008288 6-phosphofructokinase; Provisional; Region: PRK03202 927704008289 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 927704008290 active site 927704008291 ADP/pyrophosphate binding site [chemical binding]; other site 927704008292 dimerization interface [polypeptide binding]; other site 927704008293 allosteric effector site; other site 927704008294 fructose-1,6-bisphosphate binding site; other site 927704008295 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 927704008296 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 927704008297 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 927704008298 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 927704008299 Beta-lactamase; Region: Beta-lactamase; pfam00144 927704008300 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 927704008301 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 927704008302 S-adenosylmethionine binding site [chemical binding]; other site 927704008303 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 927704008304 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 927704008305 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 927704008306 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 927704008307 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 927704008308 trmE is a tRNA modification GTPase; Region: trmE; cd04164 927704008309 G1 box; other site 927704008310 GTP/Mg2+ binding site [chemical binding]; other site 927704008311 Switch I region; other site 927704008312 G2 box; other site 927704008313 Switch II region; other site 927704008314 G3 box; other site 927704008315 G4 box; other site 927704008316 G5 box; other site 927704008317 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 927704008318 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 927704008319 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 927704008320 G-X-X-G motif; other site 927704008321 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 927704008322 RxxxH motif; other site 927704008323 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 927704008324 Haemolytic domain; Region: Haemolytic; pfam01809 927704008325 ribonuclease P; Reviewed; Region: rnpA; PRK00499 927704008326 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 927704008327 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 927704008328 active site 927704008329 catalytic residues [active] 927704008330 DNA binding site [nucleotide binding] 927704008331 Int/Topo IB signature motif; other site 927704008332 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 927704008333 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 927704008334 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 927704008335 MPN+ (JAMM) motif; other site 927704008336 Zinc-binding site [ion binding]; other site 927704008337 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 927704008338 HSP70 interaction site [polypeptide binding]; other site 927704008339 Protein of unknown function (DUF2949); Region: DUF2949; pfam11165 927704008340 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 927704008341 Phage-related protein [Function unknown]; Region: COG4695; cl01923 927704008342 Phage portal protein; Region: Phage_portal; pfam04860 927704008343 probable rhamnose biosynthetic enzyme; Region: PLN02260 927704008344 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 927704008345 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 927704008346 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 927704008347 N-acetyl-D-glucosamine binding site [chemical binding]; other site 927704008348 catalytic residue [active] 927704008349 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 927704008350 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 927704008351 Phage-related protein, tail component [Function unknown]; Region: COG4733 927704008352 Putative phage tail protein; Region: Phage-tail_3; pfam13550 927704008353 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704008354 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 927704008355 amidase catalytic site [active] 927704008356 Zn binding residues [ion binding]; other site 927704008357 substrate binding site [chemical binding]; other site 927704008358 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 927704008359 DNA methylase; Region: N6_N4_Mtase; cl17433 927704008360 DNA-directed DNA polymerase III (polc); Region: polc; TIGR00594 927704008361 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 927704008362 active site 927704008363 plasmid segregation protein ParM; Provisional; Region: PRK13917 927704008364 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 927704008365 Mg binding site [ion binding]; other site 927704008366 nucleotide binding site [chemical binding]; other site 927704008367 putative protofilament interface [polypeptide binding]; other site 927704008368 Helix-turn-helix domain; Region: HTH_36; pfam13730 927704008369 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 927704008370 DNA primase, catalytic core; Region: dnaG; TIGR01391 927704008371 CHC2 zinc finger; Region: zf-CHC2; cl17510 927704008372 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 927704008373 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 927704008374 active site 927704008375 metal binding site [ion binding]; metal-binding site 927704008376 interdomain interaction site; other site 927704008377 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 927704008378 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 927704008379 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 927704008380 Walker A motif; other site 927704008381 ATP binding site [chemical binding]; other site 927704008382 Walker B motif; other site 927704008383 Initiator Replication protein; Region: Rep_3; pfam01051 927704008384 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 927704008385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 927704008386 alanine--tRNA ligase; Region: alaS; TIGR00344 927704008387 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 927704008388 trimer interface [polypeptide binding]; other site 927704008389 active site 927704008390 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 927704008391 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 927704008392 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 927704008393 dimer interface [polypeptide binding]; other site 927704008394 ssDNA binding site [nucleotide binding]; other site 927704008395 tetramer (dimer of dimers) interface [polypeptide binding]; other site 927704008396 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 927704008397 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 927704008398 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 927704008399 DNA binding residues [nucleotide binding] 927704008400 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 927704008401 FeS/SAM binding site; other site 927704008402 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 927704008403 putative active site [active] 927704008404 Initiator Replication protein; Region: Rep_3; pfam01051 927704008405 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 927704008406 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008407 P-loop; other site 927704008408 Magnesium ion binding site [ion binding]; other site 927704008409 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008410 Magnesium ion binding site [ion binding]; other site 927704008411 Fic/DOC family; Region: Fic; cl00960 927704008412 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 927704008413 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 927704008414 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 927704008415 non-specific DNA binding site [nucleotide binding]; other site 927704008416 salt bridge; other site 927704008417 sequence-specific DNA binding site [nucleotide binding]; other site 927704008418 HsdM N-terminal domain; Region: HsdM_N; pfam12161 927704008419 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 927704008420 Methyltransferase domain; Region: Methyltransf_26; pfam13659 927704008421 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 927704008422 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 927704008423 Virulence protein [General function prediction only]; Region: COG3943 927704008424 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 927704008425 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 927704008426 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 927704008427 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 927704008428 ATP binding site [chemical binding]; other site 927704008429 putative Mg++ binding site [ion binding]; other site 927704008430 MobA/MobL family; Region: MobA_MobL; pfam03389 927704008431 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 927704008432 Chloramphenicol acetyltransferase; Region: CAT; cl02008 927704008433 Radical SAM superfamily; Region: Radical_SAM; pfam04055 927704008434 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 927704008435 FeS/SAM binding site; other site 927704008436 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 927704008437 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 927704008438 MarR family; Region: MarR; pfam01047 927704008439 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 927704008440 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 927704008441 catalytic residues [active] 927704008442 catalytic nucleophile [active] 927704008443 Presynaptic Site I dimer interface [polypeptide binding]; other site 927704008444 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 927704008445 Synaptic Flat tetramer interface [polypeptide binding]; other site 927704008446 Synaptic Site I dimer interface [polypeptide binding]; other site 927704008447 DNA binding site [nucleotide binding] 927704008448 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 927704008449 non-specific DNA binding site [nucleotide binding]; other site 927704008450 salt bridge; other site 927704008451 sequence-specific DNA binding site [nucleotide binding]; other site 927704008452 HipA N-terminal domain; Region: Couple_hipA; cl11853 927704008453 HipA-like N-terminal domain; Region: HipA_N; pfam07805 927704008454 HipA-like C-terminal domain; Region: HipA_C; pfam07804 927704008455 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 927704008456 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 927704008457 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 927704008458 RelB antitoxin; Region: RelB; cl01171 927704008459 AAA domain; Region: AAA_21; pfam13304 927704008460 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704008461 Walker B; other site 927704008462 D-loop; other site 927704008463 H-loop/switch region; other site 927704008464 Initiator Replication protein; Region: Rep_3; pfam01051 927704008465 Replication protein; Region: Rep_1; pfam01446 927704008466 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 927704008467 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008468 P-loop; other site 927704008469 Magnesium ion binding site [ion binding]; other site 927704008470 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008471 Magnesium ion binding site [ion binding]; other site 927704008472 DNA-directed DNA polymerase III (polc); Region: polc; TIGR00594 927704008473 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 927704008474 active site 927704008475 BRO family, N-terminal domain; Region: Bro-N; smart01040 927704008476 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 927704008477 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 927704008478 substrate binding site [chemical binding]; other site 927704008479 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 927704008480 Putative phage tail protein; Region: Phage-tail_3; pfam13550 927704008481 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 927704008482 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 927704008483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 927704008484 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 927704008485 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 927704008486 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 927704008487 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 927704008488 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 927704008489 TIGR03545 family protein; Region: TIGR03545 927704008490 Phage portal protein; Region: Phage_portal; pfam04860 927704008491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 927704008492 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 927704008493 BRO family, N-terminal domain; Region: Bro-N; smart01040 927704008494 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 927704008495 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 927704008496 active site 927704008497 catalytic residues [active] 927704008498 DNA binding site [nucleotide binding] 927704008499 Int/Topo IB signature motif; other site 927704008500 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 927704008501 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 927704008502 DNA binding residues [nucleotide binding] 927704008503 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 927704008504 trimer interface [polypeptide binding]; other site 927704008505 active site 927704008506 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 927704008507 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 927704008508 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 927704008509 active site 927704008510 dimer interface [polypeptide binding]; other site 927704008511 effector binding site; other site 927704008512 TSCPD domain; Region: TSCPD; pfam12637 927704008513 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 927704008514 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 927704008515 HNH endonuclease; Region: HNH_3; pfam13392 927704008516 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 927704008517 DNA binding site [nucleotide binding] 927704008518 DNA primase, catalytic core; Region: dnaG; TIGR01391 927704008519 CHC2 zinc finger; Region: zf-CHC2; cl17510 927704008520 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 927704008521 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 927704008522 active site 927704008523 metal binding site [ion binding]; metal-binding site 927704008524 interdomain interaction site; other site 927704008525 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 927704008526 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 927704008527 Walker A motif; other site 927704008528 ATP binding site [chemical binding]; other site 927704008529 Walker B motif; other site 927704008530 3D domain; Region: 3D; cl01439 927704008531 single-stranded DNA-binding protein; Region: PHA00458 927704008532 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 927704008533 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 927704008534 non-specific DNA binding site [nucleotide binding]; other site 927704008535 salt bridge; other site 927704008536 sequence-specific DNA binding site [nucleotide binding]; other site 927704008537 Domain of unknown function (DUF955); Region: DUF955; pfam06114 927704008538 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 927704008539 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 927704008540 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 927704008541 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 927704008542 DNA binding residues [nucleotide binding] 927704008543 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 927704008544 active site 927704008545 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 927704008546 Phage portal protein; Region: Phage_portal; pfam04860 927704008547 Phage-related protein [Function unknown]; Region: COG4695; cl01923 927704008548 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 927704008549 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 927704008550 Phage capsid family; Region: Phage_capsid; pfam05065 927704008551 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 927704008552 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 927704008553 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 927704008554 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 927704008555 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 927704008556 Phage XkdN-like protein; Region: XkdN; pfam08890 927704008557 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 927704008558 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 927704008559 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 927704008560 Baseplate J-like protein; Region: Baseplate_J; pfam04865 927704008561 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 927704008562 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 927704008563 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 927704008564 active site 927704008565 metal binding site [ion binding]; metal-binding site 927704008566 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 927704008567 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 927704008568 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008569 P-loop; other site 927704008570 Magnesium ion binding site [ion binding]; other site 927704008571 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008572 Magnesium ion binding site [ion binding]; other site 927704008573 ParB-like nuclease domain; Region: ParBc; cl02129 927704008574 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 927704008575 Initiator Replication protein; Region: Rep_3; pfam01051 927704008576 Transposase; Region: HTH_Tnp_1; cl17663 927704008577 putative transposase OrfB; Reviewed; Region: PHA02517 927704008578 HTH-like domain; Region: HTH_21; pfam13276 927704008579 Integrase core domain; Region: rve; pfam00665 927704008580 Integrase core domain; Region: rve_3; pfam13683 927704008581 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 927704008582 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 927704008583 putative active site pocket [active] 927704008584 cleavage site 927704008585 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 927704008586 fructuronate transporter; Provisional; Region: PRK10034; cl15264 927704008587 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 927704008588 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 927704008589 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 927704008590 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 927704008591 anti sigma factor interaction site; other site 927704008592 regulatory phosphorylation site [posttranslational modification]; other site 927704008593 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 927704008594 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 927704008595 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 927704008596 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 927704008597 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 927704008598 putative ligand binding site [chemical binding]; other site 927704008599 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 927704008600 NlpC/P60 family; Region: NLPC_P60; cl17555 927704008601 Esterase/lipase [General function prediction only]; Region: COG1647 927704008602 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 927704008603 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 927704008604 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 927704008605 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 927704008606 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 927704008607 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 927704008608 AAA domain; Region: AAA_14; pfam13173 927704008609 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 927704008610 Flavin Reductases; Region: FlaRed; cl00801 927704008611 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 927704008612 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 927704008613 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 927704008614 Predicted transcriptional regulators [Transcription]; Region: COG1695 927704008615 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 927704008616 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 927704008617 Archaeal ATPase; Region: Arch_ATPase; pfam01637 927704008618 AAA ATPase domain; Region: AAA_16; pfam13191 927704008619 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 927704008620 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 927704008621 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 927704008622 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 927704008623 Major Facilitator Superfamily; Region: MFS_1; pfam07690 927704008624 putative substrate translocation pore; other site 927704008625 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 927704008626 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 927704008627 active site 927704008628 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 927704008629 active site 927704008630 motif I; other site 927704008631 motif II; other site 927704008632 Uncharacterized conserved protein [Function unknown]; Region: COG3603 927704008633 Family description; Region: ACT_7; pfam13840 927704008634 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 927704008635 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 927704008636 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 927704008637 DNA binding residues [nucleotide binding] 927704008638 putative dimer interface [polypeptide binding]; other site 927704008639 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 927704008640 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 927704008641 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 927704008642 putative catalytic site [active] 927704008643 putative metal binding site [ion binding]; other site 927704008644 putative phosphate binding site [ion binding]; other site 927704008645 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 927704008646 putative ADP-ribose binding site [chemical binding]; other site 927704008647 putative active site [active] 927704008648 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 927704008649 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 927704008650 metal ion-dependent adhesion site (MIDAS); other site 927704008651 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 927704008652 AAA domain; Region: AAA_28; pfam13521 927704008653 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 927704008654 active site 927704008655 8-oxo-dGMP binding site [chemical binding]; other site 927704008656 nudix motif; other site 927704008657 metal binding site [ion binding]; metal-binding site 927704008658 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 927704008659 Protein of unknown function DUF262; Region: DUF262; pfam03235 927704008660 Uncharacterized conserved protein [Function unknown]; Region: COG1479 927704008661 Uncharacterized conserved protein [Function unknown]; Region: COG3472 927704008662 glycerate kinase; Region: TIGR00045 927704008663 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 927704008664 putative oxidoreductase; Provisional; Region: PRK10206 927704008665 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 927704008666 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 927704008667 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 927704008668 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 927704008669 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 927704008670 Predicted membrane protein [Function unknown]; Region: COG2855 927704008671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704008672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704008673 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 927704008674 putative dimerization interface [polypeptide binding]; other site 927704008675 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 927704008676 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 927704008677 Major Facilitator Superfamily; Region: MFS_1; pfam07690 927704008678 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704008679 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704008680 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 927704008681 dimerization interface [polypeptide binding]; other site 927704008682 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 927704008683 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 927704008684 active site 927704008685 metal binding site [ion binding]; metal-binding site 927704008686 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 927704008687 Transposase, Mutator family; Region: Transposase_mut; pfam00872 927704008688 MULE transposase domain; Region: MULE; pfam10551 927704008689 Transposase, Mutator family; Region: Transposase_mut; pfam00872 927704008690 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 927704008691 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 927704008692 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 927704008693 catalytic residues [active] 927704008694 dimer interface [polypeptide binding]; other site 927704008695 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 927704008696 catalytic residues [active] 927704008697 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 927704008698 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 927704008699 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 927704008700 Rubrerythrin [Energy production and conversion]; Region: COG1592 927704008701 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 927704008702 diiron binding motif [ion binding]; other site 927704008703 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 927704008704 iron binding site [ion binding]; other site 927704008705 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 927704008706 catalytic residues [active] 927704008707 dimer interface [polypeptide binding]; other site 927704008708 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 927704008709 MarR family; Region: MarR; pfam01047 927704008710 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 927704008711 Predicted transcriptional regulators [Transcription]; Region: COG1733 927704008712 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 927704008713 putative DNA binding site [nucleotide binding]; other site 927704008714 dimerization interface [polypeptide binding]; other site 927704008715 putative Zn2+ binding site [ion binding]; other site 927704008716 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 927704008717 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 927704008718 EamA-like transporter family; Region: EamA; pfam00892 927704008719 EamA-like transporter family; Region: EamA; pfam00892 927704008720 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 927704008721 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 927704008722 active site 927704008723 motif I; other site 927704008724 motif II; other site 927704008725 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 927704008726 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 927704008727 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; cl00630 927704008728 putative active site [active] 927704008729 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 927704008730 S-adenosylmethionine binding site [chemical binding]; other site 927704008731 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 927704008732 Chloramphenicol acetyltransferase; Region: CAT; cl02008 927704008733 Protein of unknown function (DUF419); Region: DUF419; cl15265 927704008734 Protein of unknown function, DUF488; Region: DUF488; cl01246 927704008735 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 927704008736 Coenzyme A binding pocket [chemical binding]; other site 927704008737 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 927704008738 motif II; other site 927704008739 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 927704008740 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 927704008741 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 927704008742 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 927704008743 DNA binding site [nucleotide binding] 927704008744 active site 927704008745 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 927704008746 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 927704008747 beta-galactosidase; Region: BGL; TIGR03356 927704008748 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 927704008749 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 927704008750 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 927704008751 active site turn [active] 927704008752 phosphorylation site [posttranslational modification] 927704008753 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 927704008754 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 927704008755 HPr interaction site; other site 927704008756 glycerol kinase (GK) interaction site [polypeptide binding]; other site 927704008757 active site 927704008758 phosphorylation site [posttranslational modification] 927704008759 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 927704008760 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 927704008761 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 927704008762 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 927704008763 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 927704008764 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 927704008765 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 927704008766 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008767 P-loop; other site 927704008768 Magnesium ion binding site [ion binding]; other site 927704008769 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008770 Magnesium ion binding site [ion binding]; other site 927704008771 Initiator Replication protein; Region: Rep_3; pfam01051 927704008772 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 927704008773 TrwC relaxase; Region: TrwC; pfam08751 927704008774 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 927704008775 AAA domain; Region: AAA_30; pfam13604 927704008776 Family description; Region: UvrD_C_2; pfam13538 927704008777 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 927704008778 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 927704008779 potential frameshift: common BLAST hit: gi|284047585|ref|YP_003397924.1| adhesin HecA family 927704008780 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 927704008781 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 927704008782 DHHA2 domain; Region: DHHA2; pfam02833 927704008783 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 927704008784 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 927704008785 Surface antigen; Region: Bac_surface_Ag; pfam01103 927704008786 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 927704008787 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 927704008788 catalytic residues [active] 927704008789 catalytic nucleophile [active] 927704008790 Presynaptic Site I dimer interface [polypeptide binding]; other site 927704008791 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 927704008792 Synaptic Flat tetramer interface [polypeptide binding]; other site 927704008793 Synaptic Site I dimer interface [polypeptide binding]; other site 927704008794 DNA binding site [nucleotide binding] 927704008795 helix-turn-helix, Psq domain; Region: HTH_psq; pfam05225 927704008796 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 927704008797 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 927704008798 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 927704008799 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008800 P-loop; other site 927704008801 Magnesium ion binding site [ion binding]; other site 927704008802 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 927704008803 Magnesium ion binding site [ion binding]; other site 927704008804 ParB-like nuclease domain; Region: ParB; smart00470 927704008805 Initiator Replication protein; Region: Rep_3; pfam01051 927704008806 enolase; Provisional; Region: eno; PRK00077 927704008807 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 927704008808 dimer interface [polypeptide binding]; other site 927704008809 metal binding site [ion binding]; metal-binding site 927704008810 substrate binding pocket [chemical binding]; other site 927704008811 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 927704008812 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 927704008813 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 927704008814 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 927704008815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 927704008816 Heavy-metal-associated domain; Region: HMA; pfam00403 927704008817 metal-binding site [ion binding] 927704008818 cobalt transport protein CbiM; Provisional; Region: PRK07331 927704008819 cobalt transport protein CbiM; Provisional; Region: PRK11909 927704008820 PDGLE domain; Region: PDGLE; pfam13190 927704008821 Cobalt transport protein; Region: CbiQ; cl00463 927704008822 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 927704008823 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 927704008824 Walker A/P-loop; other site 927704008825 ATP binding site [chemical binding]; other site 927704008826 Q-loop/lid; other site 927704008827 ABC transporter signature motif; other site 927704008828 Walker B; other site 927704008829 D-loop; other site 927704008830 H-loop/switch region; other site 927704008831 PAS fold; Region: PAS_3; pfam08447 927704008832 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 927704008833 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 927704008834 dimer interface [polypeptide binding]; other site 927704008835 phosphorylation site [posttranslational modification] 927704008836 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 927704008837 ATP binding site [chemical binding]; other site 927704008838 Mg2+ binding site [ion binding]; other site 927704008839 G-X-G motif; other site 927704008840 Response regulator receiver domain; Region: Response_reg; pfam00072 927704008841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704008842 active site 927704008843 phosphorylation site [posttranslational modification] 927704008844 intermolecular recognition site; other site 927704008845 dimerization interface [polypeptide binding]; other site 927704008846 Rrf2 family protein; Region: rrf2_super; TIGR00738 927704008847 Transcriptional regulator; Region: Rrf2; pfam02082 927704008848 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 927704008849 Cation efflux family; Region: Cation_efflux; pfam01545 927704008850 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 927704008851 dimerization interface [polypeptide binding]; other site 927704008852 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 927704008853 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 927704008854 dimer interface [polypeptide binding]; other site 927704008855 putative CheW interface [polypeptide binding]; other site 927704008856 NapD protein; Region: NapD; cl01163 927704008857 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 927704008858 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 927704008859 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 927704008860 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 927704008861 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 927704008862 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 927704008863 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 927704008864 [4Fe-4S] binding site [ion binding]; other site 927704008865 molybdopterin cofactor binding site; other site 927704008866 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 927704008867 molybdopterin cofactor binding site; other site 927704008868 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 927704008869 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 927704008870 active site 927704008871 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 927704008872 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 927704008873 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 927704008874 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 927704008875 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 927704008876 active site residue [active] 927704008877 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 927704008878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704008879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704008880 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 927704008881 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 927704008882 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 927704008883 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 927704008884 substrate binding site [chemical binding]; other site 927704008885 THF binding site; other site 927704008886 zinc-binding site [ion binding]; other site 927704008887 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704008888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704008889 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 927704008890 dimerization interface [polypeptide binding]; other site 927704008891 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 927704008892 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 927704008893 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 927704008894 Coenzyme A binding pocket [chemical binding]; other site 927704008895 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 927704008896 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 927704008897 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 927704008898 active site 927704008899 metal binding site [ion binding]; metal-binding site 927704008900 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 927704008901 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 927704008902 DNA binding residues [nucleotide binding] 927704008903 putative dimer interface [polypeptide binding]; other site 927704008904 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 927704008905 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 927704008906 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 927704008907 Walker A motif; other site 927704008908 ATP binding site [chemical binding]; other site 927704008909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 927704008910 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 927704008911 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 927704008912 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 927704008913 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 927704008914 TPP-binding site; other site 927704008915 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 927704008916 PYR/PP interface [polypeptide binding]; other site 927704008917 dimer interface [polypeptide binding]; other site 927704008918 TPP binding site [chemical binding]; other site 927704008919 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 927704008920 Autotransporter beta-domain; Region: Autotransporter; smart00869 927704008921 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 927704008922 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 927704008923 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 927704008924 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 927704008925 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; cd01292 927704008926 active site 927704008927 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 927704008928 active site 927704008929 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 927704008930 catalytic tetrad [active] 927704008931 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 927704008932 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 927704008933 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 927704008934 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 927704008935 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 927704008936 active site 927704008937 catalytic tetrad [active] 927704008938 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 927704008939 classical (c) SDRs; Region: SDR_c; cd05233 927704008940 NAD(P) binding site [chemical binding]; other site 927704008941 active site 927704008942 YCII-related domain; Region: YCII; cl00999 927704008943 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 927704008944 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 927704008945 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 927704008946 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 927704008947 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 927704008948 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 927704008949 putative active site [active] 927704008950 Bacterial SH3 domain; Region: SH3_3; cl17532 927704008951 Cupin domain; Region: Cupin_2; cl17218 927704008952 Predicted transcriptional regulator [Transcription]; Region: COG1959 927704008953 Transcriptional regulator; Region: Rrf2; pfam02082 927704008954 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 927704008955 potential frameshift: common BLAST hit: gi|150007627|ref|YP_001302370.1| alpha/beta hydrolase 927704008956 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 927704008957 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 927704008958 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704008959 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 927704008960 Probable transposase; Region: OrfB_IS605; pfam01385 927704008961 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704008962 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704008963 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704008964 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 927704008965 dimerization interface [polypeptide binding]; other site 927704008966 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 927704008967 Major Facilitator Superfamily; Region: MFS_1; pfam07690 927704008968 putative substrate translocation pore; other site 927704008969 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 927704008970 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 927704008971 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 927704008972 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 927704008973 Uncharacterized conserved protein [Function unknown]; Region: COG4925 927704008974 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 927704008975 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 927704008976 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704008977 Walker A/P-loop; other site 927704008978 ATP binding site [chemical binding]; other site 927704008979 Q-loop/lid; other site 927704008980 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 927704008981 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704008982 ABC transporter signature motif; other site 927704008983 Walker B; other site 927704008984 D-loop; other site 927704008985 H-loop/switch region; other site 927704008986 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704008987 AAA domain; Region: AAA_21; pfam13304 927704008988 Walker A/P-loop; other site 927704008989 ATP binding site [chemical binding]; other site 927704008990 Q-loop/lid; other site 927704008991 ABC transporter signature motif; other site 927704008992 Walker B; other site 927704008993 D-loop; other site 927704008994 H-loop/switch region; other site 927704008995 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 927704008996 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 927704008997 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704008998 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704008999 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 927704009000 dimerization interface [polypeptide binding]; other site 927704009001 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 927704009002 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 927704009003 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 927704009004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704009005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 927704009006 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 927704009007 dimerization interface [polypeptide binding]; other site 927704009008 SnoaL-like domain; Region: SnoaL_3; pfam13474 927704009009 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; cd00531 927704009010 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 927704009011 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 927704009012 trimer interface [polypeptide binding]; other site 927704009013 active site 927704009014 substrate binding site [chemical binding]; other site 927704009015 CoA binding site [chemical binding]; other site 927704009016 short chain dehydrogenase; Provisional; Region: PRK06940 927704009017 classical (c) SDRs; Region: SDR_c; cd05233 927704009018 NAD(P) binding site [chemical binding]; other site 927704009019 active site 927704009020 potential frameshift: common BLAST hit: gi|302669203|ref|YP_003832353.1| alpha/beta fold family hydrolase 927704009021 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 927704009022 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 927704009023 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 927704009024 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 927704009025 Coenzyme A binding pocket [chemical binding]; other site 927704009026 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 927704009027 Coenzyme A binding pocket [chemical binding]; other site 927704009028 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 927704009029 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 927704009030 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 927704009031 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 927704009032 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 927704009033 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 927704009034 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 927704009035 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 927704009036 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 927704009037 Flavodoxin domain; Region: Flavodoxin_5; cl17428 927704009038 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 927704009039 Uncharacterized membrane protein [Function unknown]; Region: COG3949 927704009040 Domain of unknown function (DUF389); Region: DUF389; pfam04087 927704009041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 927704009042 YheO-like PAS domain; Region: PAS_6; pfam08348 927704009043 HTH domain; Region: HTH_22; pfam13309 927704009044 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 927704009045 homotrimer interaction site [polypeptide binding]; other site 927704009046 putative active site [active] 927704009047 threonine synthase; Validated; Region: PRK06450 927704009048 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 927704009049 homodimer interface [polypeptide binding]; other site 927704009050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704009051 catalytic residue [active] 927704009052 Transcriptional regulator [Transcription]; Region: LysR; COG0583 927704009053 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 927704009054 Chromate transporter; Region: Chromate_transp; pfam02417 927704009055 Chromate transporter; Region: Chromate_transp; pfam02417 927704009056 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 927704009057 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 927704009058 catalytic triad [active] 927704009059 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704009060 Response regulator receiver domain; Region: Response_reg; pfam00072 927704009061 active site 927704009062 phosphorylation site [posttranslational modification] 927704009063 intermolecular recognition site; other site 927704009064 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 927704009065 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 927704009066 Surface antigen; Region: Bac_surface_Ag; pfam01103 927704009067 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 927704009068 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 927704009069 protein-splicing catalytic site; other site 927704009070 thioester formation/cholesterol transfer; other site 927704009071 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 927704009072 Citrate transporter; Region: CitMHS; pfam03600 927704009073 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 927704009074 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 927704009075 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 927704009076 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 927704009077 Autotransporter beta-domain; Region: Autotransporter; smart00869 927704009078 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 927704009079 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 927704009080 NlpC/P60 family; Region: NLPC_P60; cl17555 927704009081 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 927704009082 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 927704009083 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 927704009084 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 927704009085 Walker B; other site 927704009086 D-loop; other site 927704009087 H-loop/switch region; other site 927704009088 Transposase; Region: DEDD_Tnp_IS110; pfam01548 927704009089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 927704009090 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 927704009091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 927704009092 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 927704009093 anti sigma factor interaction site; other site 927704009094 regulatory phosphorylation site [posttranslational modification]; other site 927704009095 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 927704009096 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 927704009097 phosphate binding site [ion binding]; other site 927704009098 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 927704009099 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 927704009100 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 927704009101 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 927704009102 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 927704009103 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 927704009104 dimerization interface [polypeptide binding]; other site 927704009105 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 927704009106 membrane-bound complex binding site; other site 927704009107 hinge residues; other site 927704009108 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 927704009109 substrate binding pocket [chemical binding]; other site 927704009110 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 927704009111 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704009112 dimer interface [polypeptide binding]; other site 927704009113 conserved gate region; other site 927704009114 putative PBP binding loops; other site 927704009115 ABC-ATPase subunit interface; other site 927704009116 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 927704009117 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 927704009118 Walker A/P-loop; other site 927704009119 ATP binding site [chemical binding]; other site 927704009120 Q-loop/lid; other site 927704009121 ABC transporter signature motif; other site 927704009122 Walker B; other site 927704009123 D-loop; other site 927704009124 H-loop/switch region; other site 927704009125 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 927704009126 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 927704009127 dimer interface [polypeptide binding]; other site 927704009128 PYR/PP interface [polypeptide binding]; other site 927704009129 TPP binding site [chemical binding]; other site 927704009130 substrate binding site [chemical binding]; other site 927704009131 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 927704009132 TPP-binding site; other site 927704009133 4Fe-4S binding domain; Region: Fer4; pfam00037 927704009134 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 927704009135 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 927704009136 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 927704009137 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 927704009138 acyl-activating enzyme (AAE) consensus motif; other site 927704009139 AMP binding site [chemical binding]; other site 927704009140 active site 927704009141 CoA binding site [chemical binding]; other site 927704009142 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 927704009143 nudix motif; other site 927704009144 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 927704009145 Isochorismatase family; Region: Isochorismatase; pfam00857 927704009146 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 927704009147 catalytic triad [active] 927704009148 conserved cis-peptide bond; other site 927704009149 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 927704009150 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 927704009151 active site 927704009152 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 927704009153 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 927704009154 homodimer interface [polypeptide binding]; other site 927704009155 NAD binding pocket [chemical binding]; other site 927704009156 ATP binding pocket [chemical binding]; other site 927704009157 Mg binding site [ion binding]; other site 927704009158 active-site loop [active] 927704009159 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 927704009160 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 927704009161 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 927704009162 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 927704009163 DNA helicase II; Region: uvrD; TIGR01075 927704009164 Family description; Region: UvrD_C_2; pfam13538 927704009165 NAD-dependent deacetylase; Provisional; Region: PRK00481 927704009166 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 927704009167 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 927704009168 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 927704009169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 927704009170 active site 927704009171 phosphorylation site [posttranslational modification] 927704009172 intermolecular recognition site; other site 927704009173 dimerization interface [polypeptide binding]; other site 927704009174 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 927704009175 DNA binding site [nucleotide binding] 927704009176 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 927704009177 DNA binding residues [nucleotide binding] 927704009178 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 927704009179 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 927704009180 catalytic residues [active] 927704009181 catalytic nucleophile [active] 927704009182 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 927704009183 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 927704009184 Probable transposase; Region: OrfB_IS605; pfam01385 927704009185 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 927704009186 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 927704009187 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 927704009188 dimerization interface [polypeptide binding]; other site 927704009189 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 927704009190 dimer interface [polypeptide binding]; other site 927704009191 phosphorylation site [posttranslational modification] 927704009192 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 927704009193 ATP binding site [chemical binding]; other site 927704009194 Mg2+ binding site [ion binding]; other site 927704009195 G-X-G motif; other site 927704009196 EamA-like transporter family; Region: EamA; pfam00892 927704009197 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 927704009198 EamA-like transporter family; Region: EamA; pfam00892 927704009199 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 927704009200 Sodium Bile acid symporter family; Region: SBF; pfam01758 927704009201 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 927704009202 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 927704009203 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 927704009204 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 927704009205 Glycerate kinase family; Region: Gly_kinase; cl00841 927704009206 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 927704009207 putative oxidoreductase; Provisional; Region: PRK10206 927704009208 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 927704009209 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 927704009210 active pocket/dimerization site; other site 927704009211 active site 927704009212 phosphorylation site [posttranslational modification] 927704009213 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 927704009214 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 927704009215 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 927704009216 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 927704009217 homodimer interface [polypeptide binding]; other site 927704009218 metal binding site [ion binding]; metal-binding site 927704009219 Transcriptional regulators [Transcription]; Region: PurR; COG1609 927704009220 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 927704009221 DNA binding site [nucleotide binding] 927704009222 domain linker motif; other site 927704009223 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 927704009224 dimerization interface [polypeptide binding]; other site 927704009225 ligand binding site [chemical binding]; other site 927704009226 sodium binding site [ion binding]; other site 927704009227 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 927704009228 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 927704009229 substrate binding [chemical binding]; other site 927704009230 active site 927704009231 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 927704009232 galactoside permease; Reviewed; Region: lacY; PRK09528 927704009233 endonuclease IV; Provisional; Region: PRK01060 927704009234 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 927704009235 AP (apurinic/apyrimidinic) site pocket; other site 927704009236 DNA interaction; other site 927704009237 Metal-binding active site; metal-binding site 927704009238 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 927704009239 Ligand Binding Site [chemical binding]; other site 927704009240 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 927704009241 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 927704009242 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 927704009243 E3 interaction surface; other site 927704009244 lipoyl attachment site [posttranslational modification]; other site 927704009245 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 927704009246 MarR family; Region: MarR_2; cl17246 927704009247 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 927704009248 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 927704009249 Transcriptional regulators [Transcription]; Region: PurR; COG1609 927704009250 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 927704009251 DNA binding site [nucleotide binding] 927704009252 domain linker motif; other site 927704009253 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 927704009254 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 927704009255 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 927704009256 substrate binding [chemical binding]; other site 927704009257 active site 927704009258 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 927704009259 galactoside permease; Reviewed; Region: lacY; PRK09528 927704009260 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 927704009261 putative substrate translocation pore; other site 927704009262 Glycosyl hydrolase family 32; Region: GH32_Aec43_like; cd08995 927704009263 active site 927704009264 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 927704009265 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 927704009266 active site 927704009267 dimer interfaces [polypeptide binding]; other site 927704009268 catalytic residues [active] 927704009269 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 927704009270 ArsC family; Region: ArsC; pfam03960 927704009271 catalytic residue [active] 927704009272 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 927704009273 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 927704009274 AAA domain; Region: AAA_28; pfam13521 927704009275 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 927704009276 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 927704009277 active site 927704009278 DNA binding site [nucleotide binding] 927704009279 Int/Topo IB signature motif; other site 927704009280 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 927704009281 potential frameshift: common BLAST hit: gi|350269617|ref|YP_004880925.1| putative transposase for insertion sequence element 927704009282 Transposase, Mutator family; Region: Transposase_mut; pfam00872 927704009283 Ribosomal S13/S15 N-terminal domain; Region: Ribosomal_S13_N; pfam08069 927704009284 MULE transposase domain; Region: MULE; pfam10551 927704009285 Transposase, Mutator family; Region: Transposase_mut; pfam00872 927704009286 PcfJ-like protein; Region: PcfJ; pfam14284 927704009287 Helix-turn-helix domain; Region: HTH_17; pfam12728 927704009288 YjcZ-like protein; Region: YjcZ; pfam13990 927704009289 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 927704009290 Sel1-like repeats; Region: SEL1; smart00671 927704009291 Sel1-like repeats; Region: SEL1; smart00671 927704009292 Sel1 repeat; Region: Sel1; cl02723 927704009293 Sel1-like repeats; Region: SEL1; smart00671 927704009294 Transposase, Mutator family; Region: Transposase_mut; pfam00872 927704009295 MULE transposase domain; Region: MULE; pfam10551 927704009296 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 927704009297 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 927704009298 S-adenosylmethionine binding site [chemical binding]; other site 927704009299 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 927704009300 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 927704009301 TIGR04076 family protein; Region: TIGR04076 927704009302 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 927704009303 active site 927704009304 catalytic residues [active] 927704009305 metal binding site [ion binding]; metal-binding site 927704009306 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 927704009307 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 927704009308 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 927704009309 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 927704009310 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 927704009311 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 927704009312 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 927704009313 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 927704009314 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 927704009315 Protein of unknown function (DUF342); Region: DUF342; pfam03961 927704009316 Protein of unknown function (DUF342); Region: DUF342; pfam03961 927704009317 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 927704009318 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 927704009319 Surface antigen; Region: Bac_surface_Ag; pfam01103 927704009320 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 927704009321 substrate binding pocket [chemical binding]; other site 927704009322 catalytic triad [active] 927704009323 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 927704009324 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 927704009325 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 927704009326 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 927704009327 metal binding site [ion binding]; metal-binding site 927704009328 active site 927704009329 I-site; other site 927704009330 Autotransporter beta-domain; Region: Autotransporter; cl17461 927704009331 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 927704009332 active site 927704009333 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 927704009334 Walker A motif; other site 927704009335 ATP binding site [chemical binding]; other site 927704009336 Walker B motif; other site 927704009337 DNA polymerase IV; Reviewed; Region: PRK03103 927704009338 Y-family of DNA polymerases; Region: PolY; cl12025 927704009339 active site 927704009340 DNA binding site [nucleotide binding] 927704009341 ACT domain-containing protein [General function prediction only]; Region: COG4747 927704009342 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 927704009343 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 927704009344 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 927704009345 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 927704009346 acyl-activating enzyme (AAE) consensus motif; other site 927704009347 AMP binding site [chemical binding]; other site 927704009348 active site 927704009349 CoA binding site [chemical binding]; other site 927704009350 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 927704009351 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 927704009352 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 927704009353 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 927704009354 dimer interface [polypeptide binding]; other site 927704009355 PYR/PP interface [polypeptide binding]; other site 927704009356 TPP binding site [chemical binding]; other site 927704009357 substrate binding site [chemical binding]; other site 927704009358 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 927704009359 TPP-binding site; other site 927704009360 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 927704009361 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 927704009362 acyl-activating enzyme (AAE) consensus motif; other site 927704009363 AMP binding site [chemical binding]; other site 927704009364 active site 927704009365 CoA binding site [chemical binding]; other site 927704009366 WYL domain; Region: WYL; pfam13280 927704009367 Tetratricopeptide repeat; Region: TPR_12; pfam13424 927704009368 DDE superfamily endonuclease; Region: DDE_5; cl17874 927704009369 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 927704009370 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 927704009371 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 927704009372 active site 927704009373 metal binding site [ion binding]; metal-binding site 927704009374 stage V sporulation protein K; Region: spore_V_K; TIGR02881 927704009375 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 927704009376 Walker A motif; other site 927704009377 ATP binding site [chemical binding]; other site 927704009378 Walker B motif; other site 927704009379 arginine finger; other site 927704009380 Nuclease-related domain; Region: NERD; pfam08378 927704009381 Part of AAA domain; Region: AAA_19; pfam13245 927704009382 Family description; Region: UvrD_C_2; pfam13538 927704009383 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 927704009384 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 927704009385 active site 927704009386 NAD binding site [chemical binding]; other site 927704009387 metal binding site [ion binding]; metal-binding site 927704009388 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 927704009389 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 927704009390 inhibitor-cofactor binding pocket; inhibition site 927704009391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704009392 catalytic residue [active] 927704009393 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 927704009394 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 927704009395 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 927704009396 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 927704009397 Walker A/P-loop; other site 927704009398 ATP binding site [chemical binding]; other site 927704009399 Q-loop/lid; other site 927704009400 ABC transporter signature motif; other site 927704009401 Walker B; other site 927704009402 D-loop; other site 927704009403 H-loop/switch region; other site 927704009404 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 927704009405 dimer interface [polypeptide binding]; other site 927704009406 conserved gate region; other site 927704009407 putative PBP binding loops; other site 927704009408 ABC-ATPase subunit interface; other site 927704009409 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 927704009410 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 927704009411 substrate binding pocket [chemical binding]; other site 927704009412 membrane-bound complex binding site; other site 927704009413 hinge residues; other site 927704009414 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 927704009415 metal ion-dependent adhesion site (MIDAS); other site 927704009416 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 927704009417 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 927704009418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 927704009419 homodimer interface [polypeptide binding]; other site 927704009420 catalytic residue [active] 927704009421 biotin synthase; Region: bioB; TIGR00433 927704009422 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 927704009423 FeS/SAM binding site; other site 927704009424 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 927704009425 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 927704009426 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 927704009427 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 927704009428 putative NADH binding site [chemical binding]; other site 927704009429 putative active site [active] 927704009430 nudix motif; other site 927704009431 putative metal binding site [ion binding]; other site 927704009432 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 927704009433 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 927704009434 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 927704009435 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 927704009436 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 927704009437 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 927704009438 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 927704009439 EamA-like transporter family; Region: EamA; pfam00892 927704009440 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589