-- dump date 20140620_074032 -- class Genbank::misc_feature -- table misc_feature_note -- id note 985006000001 Replication protein; Region: Rep_1; pfam01446 985006000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 985006000003 DnaA N-terminal domain; Region: DnaA_N; pfam11638 985006000004 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 985006000005 Walker A motif; other site 985006000006 ATP binding site [chemical binding]; other site 985006000007 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 985006000008 Walker B motif; other site 985006000009 arginine finger; other site 985006000010 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 985006000011 DnaA box-binding interface [nucleotide binding]; other site 985006000012 DNA polymerase III subunit beta; Validated; Region: PRK05643 985006000013 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 985006000014 putative DNA binding surface [nucleotide binding]; other site 985006000015 dimer interface [polypeptide binding]; other site 985006000016 beta-clamp/clamp loader binding surface; other site 985006000017 beta-clamp/translesion DNA polymerase binding surface; other site 985006000018 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 985006000019 recF protein; Region: recf; TIGR00611 985006000020 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 985006000021 Walker A/P-loop; other site 985006000022 ATP binding site [chemical binding]; other site 985006000023 Q-loop/lid; other site 985006000024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006000025 ABC transporter signature motif; other site 985006000026 Walker B; other site 985006000027 D-loop; other site 985006000028 H-loop/switch region; other site 985006000029 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 985006000030 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 985006000031 Mg2+ binding site [ion binding]; other site 985006000032 G-X-G motif; other site 985006000033 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 985006000034 anchoring element; other site 985006000035 dimer interface [polypeptide binding]; other site 985006000036 ATP binding site [chemical binding]; other site 985006000037 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 985006000038 active site 985006000039 putative metal-binding site [ion binding]; other site 985006000040 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 985006000041 DNA gyrase subunit A; Validated; Region: PRK05560 985006000042 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 985006000043 CAP-like domain; other site 985006000044 active site 985006000045 primary dimer interface [polypeptide binding]; other site 985006000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985006000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985006000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985006000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985006000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985006000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985006000052 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 985006000053 putative substrate binding site [chemical binding]; other site 985006000054 putative ATP binding site [chemical binding]; other site 985006000055 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 985006000056 active sites [active] 985006000057 tetramer interface [polypeptide binding]; other site 985006000058 seryl-tRNA synthetase; Provisional; Region: PRK05431 985006000059 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 985006000060 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 985006000061 dimer interface [polypeptide binding]; other site 985006000062 active site 985006000063 motif 1; other site 985006000064 motif 2; other site 985006000065 motif 3; other site 985006000066 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 985006000067 Predicted membrane protein [Function unknown]; Region: COG4392 985006000068 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 985006000069 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 985006000070 Predicted membrane protein [Function unknown]; Region: COG4241 985006000071 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 985006000072 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 985006000073 DHH family; Region: DHH; pfam01368 985006000074 DHHA1 domain; Region: DHHA1; pfam02272 985006000075 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 985006000076 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 985006000077 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 985006000078 replicative DNA helicase; Region: DnaB; TIGR00665 985006000079 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 985006000080 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 985006000081 Walker A motif; other site 985006000082 ATP binding site [chemical binding]; other site 985006000083 Walker B motif; other site 985006000084 DNA binding loops [nucleotide binding] 985006000085 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 985006000086 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 985006000087 GDP-binding site [chemical binding]; other site 985006000088 ACT binding site; other site 985006000089 IMP binding site; other site 985006000090 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985006000091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006000092 active site 985006000093 phosphorylation site [posttranslational modification] 985006000094 intermolecular recognition site; other site 985006000095 dimerization interface [polypeptide binding]; other site 985006000096 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 985006000097 DNA binding site [nucleotide binding] 985006000098 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 985006000099 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 985006000100 dimerization interface [polypeptide binding]; other site 985006000101 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 985006000102 putative active site [active] 985006000103 heme pocket [chemical binding]; other site 985006000104 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 985006000105 dimer interface [polypeptide binding]; other site 985006000106 phosphorylation site [posttranslational modification] 985006000107 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 985006000108 ATP binding site [chemical binding]; other site 985006000109 Mg2+ binding site [ion binding]; other site 985006000110 G-X-G motif; other site 985006000111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 985006000112 YycH protein; Region: YycH; pfam07435 985006000113 YycH protein; Region: YycI; cl02015 985006000114 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 985006000115 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 985006000116 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 985006000117 putative active site [active] 985006000118 putative metal binding site [ion binding]; other site 985006000119 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985006000120 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 985006000121 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 985006000122 SCCmec type XI element 985006000123 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 985006000124 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 985006000125 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 985006000126 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 985006000127 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 985006000128 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 985006000129 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 985006000130 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 985006000131 Predicted transcriptional regulator [Transcription]; Region: COG3682 985006000132 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 985006000133 WYL domain; Region: WYL; pfam13280 985006000134 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 985006000135 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 985006000136 MPN+ (JAMM) motif; other site 985006000137 Zinc-binding site [ion binding]; other site 985006000138 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 985006000139 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 985006000140 Staphylococcus protein of unknown function (DUF950); Region: DUF950; pfam06106 985006000141 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 985006000142 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 985006000143 catalytic residues [active] 985006000144 catalytic nucleophile [active] 985006000145 Presynaptic Site I dimer interface [polypeptide binding]; other site 985006000146 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 985006000147 Synaptic Flat tetramer interface [polypeptide binding]; other site 985006000148 Synaptic Site I dimer interface [polypeptide binding]; other site 985006000149 DNA binding site [nucleotide binding] 985006000150 Recombinase; Region: Recombinase; pfam07508 985006000151 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 985006000152 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 985006000153 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 985006000154 catalytic residues [active] 985006000155 catalytic nucleophile [active] 985006000156 Recombinase; Region: Recombinase; pfam07508 985006000157 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 985006000158 Domain of unknown function (DUF927); Region: DUF927; pfam06048 985006000159 Domain of unknown function (DUF927); Region: DUF927; cl12098 985006000160 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 985006000161 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 985006000162 DEAD/DEAH box helicase; Region: DEAD; pfam00270 985006000163 ATP binding site [chemical binding]; other site 985006000164 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 985006000165 Probable gene remnant. Similar to the C-terminal region of Staphylococcus epidermidis lip recname: full=lipase ec=3.1.1.3 altname: full=glycerol ester hydrolase flags: precursor UniProt:P0C0R3 (EMBL:M95577) (688 aa) fasta scores: E()=3.7e-85, 48.2% id in 413 aa 985006000166 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 985006000167 FAD binding domain; Region: FAD_binding_2; pfam00890 985006000168 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 985006000169 FtsX-like permease family; Region: FtsX; pfam02687 985006000170 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985006000171 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 985006000172 Walker A/P-loop; other site 985006000173 ATP binding site [chemical binding]; other site 985006000174 Q-loop/lid; other site 985006000175 ABC transporter signature motif; other site 985006000176 Walker B; other site 985006000177 D-loop; other site 985006000178 H-loop/switch region; other site 985006000179 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 985006000180 Probable gene remnant. Similar to the N-terminal region of several major facilitator superfamily proteins 985006000181 Low molecular weight phosphatase family; Region: LMWPc; cd00115 985006000182 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 985006000183 active site 985006000184 arsenical pump membrane protein; Provisional; Region: PRK15445 985006000185 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 985006000186 transmembrane helices; other site 985006000187 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 985006000188 dimerization interface [polypeptide binding]; other site 985006000189 putative DNA binding site [nucleotide binding]; other site 985006000190 putative Zn2+ binding site [ion binding]; other site 985006000191 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 985006000192 cyclase homology domain; Region: CHD; cd07302 985006000193 nucleotidyl binding site; other site 985006000194 metal binding site [ion binding]; metal-binding site 985006000195 dimer interface [polypeptide binding]; other site 985006000196 HsdM N-terminal domain; Region: HsdM_N; pfam12161 985006000197 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 985006000198 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 985006000199 S-adenosylmethionine binding site [chemical binding]; other site 985006000200 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 985006000201 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 985006000202 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 985006000203 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 985006000204 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 985006000205 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 985006000206 ATP binding site [chemical binding]; other site 985006000207 putative Mg++ binding site [ion binding]; other site 985006000208 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 985006000209 Probable gene remnant 985006000210 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 985006000211 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 985006000212 putative homodimer interface [polypeptide binding]; other site 985006000213 putative homotetramer interface [polypeptide binding]; other site 985006000214 putative metal binding site [ion binding]; other site 985006000215 putative homodimer-homodimer interface [polypeptide binding]; other site 985006000216 putative allosteric switch controlling residues; other site 985006000217 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 985006000218 active site residue [active] 985006000219 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 985006000220 CPxP motif; other site 985006000221 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 985006000222 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 985006000223 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 985006000224 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 985006000225 active site residue [active] 985006000226 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 985006000227 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 985006000228 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 985006000229 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 985006000230 FMN binding site [chemical binding]; other site 985006000231 active site 985006000232 catalytic residues [active] 985006000233 substrate binding site [chemical binding]; other site 985006000234 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 985006000235 H+ Antiporter protein; Region: 2A0121; TIGR00900 985006000236 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 985006000237 putative substrate translocation pore; other site 985006000238 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 985006000239 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985006000240 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985006000241 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985006000242 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 985006000243 dimerization interface [polypeptide binding]; other site 985006000244 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 985006000245 active site 985006000246 catalytic site [active] 985006000247 putative metal binding site [ion binding]; other site 985006000249 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985006000250 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985006000251 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 985006000252 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985006000253 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985006000254 metal binding site [ion binding]; metal-binding site 985006000255 dimer interface [polypeptide binding]; other site 985006000256 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 985006000257 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985006000258 putative substrate translocation pore; other site 985006000259 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 985006000260 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 985006000261 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 985006000262 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 985006000263 PhoU domain; Region: PhoU; pfam01895 985006000264 Myosin-crossreactive antigen [Function unknown]; Region: COG4716 985006000265 EamA-like transporter family; Region: EamA; pfam00892 985006000266 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 985006000267 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985006000268 DNA-binding site [nucleotide binding]; DNA binding site 985006000269 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 985006000270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006000271 homodimer interface [polypeptide binding]; other site 985006000272 catalytic residue [active] 985006000273 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 985006000274 L-lactate permease; Region: Lactate_perm; cl00701 985006000275 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 985006000276 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 985006000277 B domain; Region: B; pfam02216 985006000278 B domain; Region: B; pfam02216 985006000279 B domain; Region: B; pfam02216 985006000280 B domain; Region: B; pfam02216 985006000281 B domain; Region: B; pfam02216 985006000282 Herpesvirus latent membrane protein 1 (LMP1); Region: Herpes_LMP1; pfam05297 985006000283 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985006000284 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 985006000285 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985006000286 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 985006000287 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985006000288 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985006000289 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 985006000290 ABC-ATPase subunit interface; other site 985006000291 dimer interface [polypeptide binding]; other site 985006000292 putative PBP binding regions; other site 985006000293 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985006000294 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 985006000295 ABC-ATPase subunit interface; other site 985006000296 dimer interface [polypeptide binding]; other site 985006000297 putative PBP binding regions; other site 985006000298 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 985006000299 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 985006000300 siderophore binding site; other site 985006000301 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 985006000302 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 985006000303 dimer interface [polypeptide binding]; other site 985006000304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006000305 catalytic residue [active] 985006000306 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 985006000307 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 985006000308 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985006000309 IucA / IucC family; Region: IucA_IucC; pfam04183 985006000310 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985006000311 drug efflux system protein MdtG; Provisional; Region: PRK09874 985006000312 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 985006000313 putative substrate translocation pore; other site 985006000314 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985006000315 IucA / IucC family; Region: IucA_IucC; pfam04183 985006000316 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985006000317 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985006000318 IucA / IucC family; Region: IucA_IucC; pfam04183 985006000319 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985006000320 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 985006000321 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 985006000322 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 985006000323 dimer interface [polypeptide binding]; other site 985006000324 active site 985006000325 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985006000326 catalytic residues [active] 985006000327 substrate binding site [chemical binding]; other site 985006000328 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 985006000329 ParB-like nuclease domain; Region: ParBc; pfam02195 985006000330 acetoin reductase; Validated; Region: PRK08643 985006000331 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 985006000332 NAD binding site [chemical binding]; other site 985006000333 homotetramer interface [polypeptide binding]; other site 985006000334 homodimer interface [polypeptide binding]; other site 985006000335 active site 985006000336 substrate binding site [chemical binding]; other site 985006000337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985006000338 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 985006000339 NAD(P) binding site [chemical binding]; other site 985006000340 active site 985006000341 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 985006000342 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 985006000343 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985006000344 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 985006000345 putative ADP-binding pocket [chemical binding]; other site 985006000346 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 985006000347 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 985006000348 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 985006000349 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 985006000350 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 985006000351 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 985006000352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985006000353 DNA-binding site [nucleotide binding]; DNA binding site 985006000354 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 985006000355 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 985006000356 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985006000357 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 985006000358 intersubunit interface [polypeptide binding]; other site 985006000359 active site 985006000360 catalytic residue [active] 985006000361 phosphopentomutase; Provisional; Region: PRK05362 985006000362 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 985006000363 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 985006000364 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 985006000365 dimer interface [polypeptide binding]; other site 985006000366 conserved gate region; other site 985006000367 putative PBP binding loops; other site 985006000368 ABC-ATPase subunit interface; other site 985006000369 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 985006000370 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 985006000371 dimer interface [polypeptide binding]; other site 985006000372 conserved gate region; other site 985006000373 ABC-ATPase subunit interface; other site 985006000374 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 985006000375 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 985006000376 Walker A/P-loop; other site 985006000377 ATP binding site [chemical binding]; other site 985006000378 Q-loop/lid; other site 985006000379 ABC transporter signature motif; other site 985006000380 Walker B; other site 985006000381 D-loop; other site 985006000382 H-loop/switch region; other site 985006000383 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 985006000384 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 985006000385 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 985006000386 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 985006000387 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 985006000388 active site 985006000389 metal binding site [ion binding]; metal-binding site 985006000390 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985006000392 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985006000393 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 985006000394 non-specific DNA binding site [nucleotide binding]; other site 985006000395 salt bridge; other site 985006000396 sequence-specific DNA binding site [nucleotide binding]; other site 985006000397 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 985006000398 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 985006000399 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 985006000400 putative catalytic cysteine [active] 985006000401 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 985006000402 putative active site [active] 985006000403 metal binding site [ion binding]; metal-binding site 985006000404 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 985006000405 polysaccharide export protein, MPA1 family, Gram-positive type; Region: polys_exp_MPA1; TIGR01006 985006000406 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 985006000407 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 985006000408 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 985006000409 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 985006000410 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 985006000411 NAD(P) binding site [chemical binding]; other site 985006000412 homodimer interface [polypeptide binding]; other site 985006000413 substrate binding site [chemical binding]; other site 985006000414 active site 985006000415 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 985006000416 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 985006000417 NAD(P) binding site [chemical binding]; other site 985006000418 homodimer interface [polypeptide binding]; other site 985006000419 substrate binding site [chemical binding]; other site 985006000420 active site 985006000421 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 985006000422 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 985006000423 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 985006000424 putative NAD(P) binding site [chemical binding]; other site 985006000425 active site 985006000426 putative substrate binding site [chemical binding]; other site 985006000427 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 985006000428 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 985006000429 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 985006000430 active site 985006000431 homodimer interface [polypeptide binding]; other site 985006000432 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 985006000433 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 985006000434 trimer interface [polypeptide binding]; other site 985006000435 active site 985006000436 substrate binding site [chemical binding]; other site 985006000437 CoA binding site [chemical binding]; other site 985006000438 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985006000439 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 985006000440 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 985006000441 O-Antigen ligase; Region: Wzy_C; pfam04932 985006000442 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985006000443 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 985006000444 Bacterial sugar transferase; Region: Bac_transf; pfam02397 985006000445 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 985006000446 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 985006000447 putative NAD(P) binding site [chemical binding]; other site 985006000448 active site 985006000449 putative substrate binding site [chemical binding]; other site 985006000450 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 985006000451 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 985006000452 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 985006000453 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 985006000454 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 985006000455 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 985006000456 active site 985006000457 homodimer interface [polypeptide binding]; other site 985006000458 heme-degrading monooxygenase IsdI; Provisional; Region: PRK13313 985006000459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 985006000460 Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like; Region: ALDH_StaphAldA1; cd07117 985006000461 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 985006000462 NAD(P) binding site [chemical binding]; other site 985006000463 catalytic residues [active] 985006000464 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 985006000465 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 985006000466 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 985006000467 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 985006000468 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 985006000469 Walker A/P-loop; other site 985006000470 ATP binding site [chemical binding]; other site 985006000471 Q-loop/lid; other site 985006000472 ABC transporter signature motif; other site 985006000473 Walker B; other site 985006000474 D-loop; other site 985006000475 H-loop/switch region; other site 985006000476 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 985006000477 NMT1-like family; Region: NMT1_2; pfam13379 985006000478 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 985006000479 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 985006000480 dimer interface [polypeptide binding]; other site 985006000481 conserved gate region; other site 985006000482 putative PBP binding loops; other site 985006000483 ABC-ATPase subunit interface; other site 985006000484 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 985006000485 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 985006000486 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985006000487 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 985006000488 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 985006000489 acyl-activating enzyme (AAE) consensus motif; other site 985006000490 AMP binding site [chemical binding]; other site 985006000491 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985006000492 Condensation domain; Region: Condensation; pfam00668 985006000493 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985006000494 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 985006000495 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985006000496 acyl-activating enzyme (AAE) consensus motif; other site 985006000497 AMP binding site [chemical binding]; other site 985006000498 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985006000499 thioester reductase domain; Region: Thioester-redct; TIGR01746 985006000500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985006000501 NAD(P) binding site [chemical binding]; other site 985006000502 active site 985006000503 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 985006000504 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 985006000505 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 985006000506 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 985006000507 nucleotide binding site [chemical binding]; other site 985006000508 N-acetyl-L-glutamate binding site [chemical binding]; other site 985006000509 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 985006000510 heterotetramer interface [polypeptide binding]; other site 985006000511 active site pocket [active] 985006000512 cleavage site 985006000513 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 985006000514 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 985006000515 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 985006000516 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 985006000517 inhibitor-cofactor binding pocket; inhibition site 985006000518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006000519 catalytic residue [active] 985006000520 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 985006000521 Isochorismatase family; Region: Isochorismatase; pfam00857 985006000522 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 985006000523 catalytic triad [active] 985006000524 conserved cis-peptide bond; other site 985006000525 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 985006000526 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 985006000527 dimer interface [polypeptide binding]; other site 985006000528 PYR/PP interface [polypeptide binding]; other site 985006000529 TPP binding site [chemical binding]; other site 985006000530 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 985006000531 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 985006000532 TPP-binding site [chemical binding]; other site 985006000533 dimer interface [polypeptide binding]; other site 985006000534 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985006000535 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 985006000536 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 985006000537 active site turn [active] 985006000538 phosphorylation site [posttranslational modification] 985006000539 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 985006000540 HPr interaction site; other site 985006000541 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985006000542 active site 985006000543 phosphorylation site [posttranslational modification] 985006000544 Uncharacterized conserved protein [Function unknown]; Region: COG3589 985006000545 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 985006000546 Predicted sugar phosphate isomerase [General function prediction only]; Region: COG2103 985006000547 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 985006000548 putative active site [active] 985006000549 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 985006000550 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 985006000551 active site turn [active] 985006000552 phosphorylation site [posttranslational modification] 985006000553 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985006000554 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985006000555 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 985006000556 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 985006000557 putative active site [active] 985006000558 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 985006000559 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 985006000560 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 985006000561 ATP binding site [chemical binding]; other site 985006000562 putative Mg++ binding site [ion binding]; other site 985006000563 RES domain; Region: RES; pfam08808 985006000564 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 985006000565 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985006000566 Walker A/P-loop; other site 985006000567 ATP binding site [chemical binding]; other site 985006000568 Q-loop/lid; other site 985006000569 ABC transporter signature motif; other site 985006000570 Walker B; other site 985006000571 D-loop; other site 985006000572 H-loop/switch region; other site 985006000573 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 985006000574 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985006000575 Walker A/P-loop; other site 985006000576 ATP binding site [chemical binding]; other site 985006000577 Q-loop/lid; other site 985006000578 ABC transporter signature motif; other site 985006000579 Walker B; other site 985006000580 D-loop; other site 985006000581 H-loop/switch region; other site 985006000582 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985006000583 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 985006000584 dimer interface [polypeptide binding]; other site 985006000585 conserved gate region; other site 985006000586 putative PBP binding loops; other site 985006000587 ABC-ATPase subunit interface; other site 985006000588 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 985006000589 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 985006000590 dimer interface [polypeptide binding]; other site 985006000591 conserved gate region; other site 985006000592 ABC-ATPase subunit interface; other site 985006000593 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 985006000594 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 985006000595 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 985006000596 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 985006000597 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 985006000598 azoreductase; Reviewed; Region: PRK00170 985006000599 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985006000600 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 985006000601 Peptidase family M23; Region: Peptidase_M23; pfam01551 985006000602 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 985006000603 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 985006000604 Walker A/P-loop; other site 985006000605 ATP binding site [chemical binding]; other site 985006000606 Q-loop/lid; other site 985006000607 ABC transporter signature motif; other site 985006000608 Walker B; other site 985006000609 D-loop; other site 985006000610 H-loop/switch region; other site 985006000611 TOBE domain; Region: TOBE; pfam03459 985006000612 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 985006000613 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985006000614 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 985006000615 dimer interface [polypeptide binding]; other site 985006000616 conserved gate region; other site 985006000617 ABC-ATPase subunit interface; other site 985006000618 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985006000619 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 985006000620 dimer interface [polypeptide binding]; other site 985006000621 conserved gate region; other site 985006000622 putative PBP binding loops; other site 985006000623 ABC-ATPase subunit interface; other site 985006000624 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985006000625 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985006000626 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985006000627 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985006000628 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985006000629 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985006000630 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 985006000631 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 985006000632 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 985006000633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 985006000634 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 985006000635 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 985006000636 putative substrate translocation pore; other site 985006000637 Response regulator receiver domain; Region: Response_reg; pfam00072 985006000638 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006000639 active site 985006000640 phosphorylation site [posttranslational modification] 985006000641 intermolecular recognition site; other site 985006000642 dimerization interface [polypeptide binding]; other site 985006000643 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985006000644 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985006000645 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985006000646 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985006000647 Histidine kinase; Region: His_kinase; pfam06580 985006000648 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 985006000649 ATP binding site [chemical binding]; other site 985006000650 Mg2+ binding site [ion binding]; other site 985006000651 G-X-G motif; other site 985006000652 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 985006000653 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 985006000654 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 985006000655 Pyruvate formate lyase 1; Region: PFL1; cd01678 985006000656 coenzyme A binding site [chemical binding]; other site 985006000657 active site 985006000658 catalytic residues [active] 985006000659 glycine loop; other site 985006000660 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 985006000661 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 985006000662 FeS/SAM binding site; other site 985006000663 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 985006000664 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 985006000665 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 985006000666 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 985006000667 putative active site [active] 985006000668 catalytic site [active] 985006000669 putative metal binding site [ion binding]; other site 985006000670 Staphylococcal complement inhibitor SCIN; Region: CompInhib_SCIN; pfam11546 985006000671 CDS contains a nonsense mutation (ochre) after codon 240 985006000672 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 985006000673 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 985006000674 dimer interface [polypeptide binding]; other site 985006000675 active site 985006000676 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 985006000677 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 985006000678 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 985006000679 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 985006000680 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 985006000681 substrate binding site [chemical binding]; other site 985006000682 oxyanion hole (OAH) forming residues; other site 985006000683 trimer interface [polypeptide binding]; other site 985006000684 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 985006000685 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 985006000686 active site 985006000687 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 985006000688 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 985006000689 acyl-activating enzyme (AAE) consensus motif; other site 985006000690 AMP binding site [chemical binding]; other site 985006000691 active site 985006000692 CoA binding site [chemical binding]; other site 985006000693 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 985006000694 Coenzyme A transferase; Region: CoA_trans; smart00882 985006000695 Coenzyme A transferase; Region: CoA_trans; cl17247 985006000696 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 985006000697 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 985006000698 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 985006000699 Uncharacterized conserved protein [Function unknown]; Region: COG3189 985006000700 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 985006000701 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 985006000702 heme-binding site [chemical binding]; other site 985006000703 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 985006000704 FAD binding pocket [chemical binding]; other site 985006000705 FAD binding motif [chemical binding]; other site 985006000706 phosphate binding motif [ion binding]; other site 985006000707 beta-alpha-beta structure motif; other site 985006000708 NAD binding pocket [chemical binding]; other site 985006000709 Heme binding pocket [chemical binding]; other site 985006000710 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 985006000711 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 985006000712 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985006000713 NAD binding site [chemical binding]; other site 985006000714 dimer interface [polypeptide binding]; other site 985006000715 substrate binding site [chemical binding]; other site 985006000716 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 985006000717 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985006000718 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 985006000719 active site turn [active] 985006000720 phosphorylation site [posttranslational modification] 985006000721 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 985006000722 active site 985006000723 tetramer interface [polypeptide binding]; other site 985006000724 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985006000725 Mga helix-turn-helix domain; Region: Mga; pfam05043 985006000726 PRD domain; Region: PRD; pfam00874 985006000727 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 985006000728 active site 985006000729 P-loop; other site 985006000730 phosphorylation site [posttranslational modification] 985006000731 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 985006000732 active site 985006000733 phosphorylation site [posttranslational modification] 985006000734 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 985006000735 active site 985006000736 phosphorylation site [posttranslational modification] 985006000737 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 985006000738 active site 985006000739 P-loop; other site 985006000740 phosphorylation site [posttranslational modification] 985006000741 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 985006000742 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 985006000743 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 985006000744 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 985006000745 putative NAD(P) binding site [chemical binding]; other site 985006000746 catalytic Zn binding site [ion binding]; other site 985006000747 structural Zn binding site [ion binding]; other site 985006000748 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 985006000749 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 985006000750 putative NAD(P) binding site [chemical binding]; other site 985006000751 catalytic Zn binding site [ion binding]; other site 985006000752 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 985006000753 substrate binding site; other site 985006000754 dimer interface; other site 985006000755 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 985006000756 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 985006000757 putative NAD(P) binding site [chemical binding]; other site 985006000758 putative catalytic Zn binding site [ion binding]; other site 985006000759 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 985006000760 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 985006000761 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 985006000762 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 985006000763 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 985006000764 substrate binding site; other site 985006000765 dimer interface; other site 985006000766 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 985006000767 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 985006000768 putative NAD(P) binding site [chemical binding]; other site 985006000769 putative catalytic Zn binding site [ion binding]; other site 985006000770 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 985006000771 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 985006000772 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985006000773 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 985006000774 active site 985006000775 cell wall biosynthesis protein ScdA; Provisional; Region: PRK13276 985006000776 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 985006000777 Hemerythrin-like domain; Region: Hr-like; cd12108 985006000778 Fe binding site [ion binding]; other site 985006000779 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 985006000780 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 985006000781 Histidine kinase; Region: His_kinase; pfam06580 985006000782 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 985006000783 Mg2+ binding site [ion binding]; other site 985006000784 G-X-G motif; other site 985006000785 two-component response regulator; Provisional; Region: PRK14084 985006000786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006000787 active site 985006000788 phosphorylation site [posttranslational modification] 985006000789 intermolecular recognition site; other site 985006000790 dimerization interface [polypeptide binding]; other site 985006000791 LytTr DNA-binding domain; Region: LytTR; pfam04397 985006000792 murein hydrolase regulator LrgA; Provisional; Region: PRK04125 985006000793 antiholin-like protein LrgB; Provisional; Region: PRK04288 985006000794 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 985006000795 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 985006000796 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 985006000797 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985006000798 DNA-binding site [nucleotide binding]; DNA binding site 985006000799 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 985006000800 Phosphotransferase system IIB components [Carbohydrate transport and metabolism]; Region: PtsG; COG1264 985006000801 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985006000802 HPr interaction site; other site 985006000803 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985006000804 active site 985006000805 phosphorylation site [posttranslational modification] 985006000806 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985006000807 beta-galactosidase; Region: BGL; TIGR03356 985006000808 Methyltransferase domain; Region: Methyltransf_31; pfam13847 985006000809 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 985006000810 S-adenosylmethionine binding site [chemical binding]; other site 985006000811 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 985006000812 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 985006000813 substrate binding site [chemical binding]; other site 985006000814 dimer interface [polypeptide binding]; other site 985006000815 ATP binding site [chemical binding]; other site 985006000816 D-ribose pyranase; Provisional; Region: PRK11797 985006000817 Sugar transport protein; Region: Sugar_transport; pfam06800 985006000818 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985006000819 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985006000820 DNA binding site [nucleotide binding] 985006000821 domain linker motif; other site 985006000822 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 985006000823 dimerization interface [polypeptide binding]; other site 985006000824 ligand binding site [chemical binding]; other site 985006000825 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 985006000826 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 985006000827 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 985006000828 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 985006000829 active site 985006000830 Surface antigen [General function prediction only]; Region: COG3942 985006000831 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 985006000832 Peptidase family M23; Region: Peptidase_M23; pfam01551 985006000833 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 985006000834 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 985006000835 Walker A/P-loop; other site 985006000836 ATP binding site [chemical binding]; other site 985006000837 Q-loop/lid; other site 985006000838 ABC transporter signature motif; other site 985006000839 Walker B; other site 985006000840 D-loop; other site 985006000841 H-loop/switch region; other site 985006000842 Surface antigen [General function prediction only]; Region: COG3942 985006000843 CHAP domain; Region: CHAP; pfam05257 985006000844 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 985006000845 Predicted membrane protein [Function unknown]; Region: COG1511 985006000846 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 985006000847 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 985006000848 type VII secretion protein EssA; Region: T7SS_EssA_Firm; TIGR03927 985006000849 Uncharacterized small protein [Function unknown]; Region: COG5417 985006000850 Predicted membrane protein [Function unknown]; Region: COG4499 985006000851 type VII secretion protein EssB; Region: T7_EssB; TIGR03926 985006000852 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 985006000853 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 985006000854 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 985006000855 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 985006000856 Protein of unknown function (DUF3130; Region: DUF3130; cl12867 985006000858 LXG domain of WXG superfamily; Region: LXG; pfam04740 985006000860 Protein of unknown function, DUF600; Region: DUF600; cl04640 985006000861 Protein of unknown function, DUF600; Region: DUF600; cl04640 985006000862 Protein of unknown function, DUF600; Region: DUF600; cl04640 985006000863 Protein of unknown function, DUF600; Region: DUF600; cl04640 985006000864 Protein of unknown function, DUF600; Region: DUF600; cl04640 985006000865 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 985006000866 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 985006000867 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 985006000868 5'-nucleotidase, lipoprotein e(P4) family; Region: lipo_e_P4; TIGR01533 985006000869 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 985006000870 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 985006000871 FtsX-like permease family; Region: FtsX; pfam02687 985006000872 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985006000873 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 985006000874 Walker A/P-loop; other site 985006000875 ATP binding site [chemical binding]; other site 985006000876 Q-loop/lid; other site 985006000877 ABC transporter signature motif; other site 985006000878 Walker B; other site 985006000879 D-loop; other site 985006000880 H-loop/switch region; other site 985006000881 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 985006000882 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 985006000883 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 985006000884 non-specific DNA binding site [nucleotide binding]; other site 985006000885 salt bridge; other site 985006000886 sequence-specific DNA binding site [nucleotide binding]; other site 985006000887 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 985006000888 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 985006000889 substrate binding site [chemical binding]; other site 985006000890 ATP binding site [chemical binding]; other site 985006000891 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 985006000892 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 985006000893 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 985006000894 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 985006000895 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 985006000896 putative transporter; Provisional; Region: PRK10484 985006000897 Na binding site [ion binding]; other site 985006000898 N-acetylneuraminate lyase; Provisional; Region: PRK04147 985006000899 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 985006000900 inhibitor site; inhibition site 985006000901 active site 985006000902 dimer interface [polypeptide binding]; other site 985006000903 catalytic residue [active] 985006000904 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985006000905 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 985006000906 nucleotide binding site [chemical binding]; other site 985006000907 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 985006000908 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985006000909 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 985006000910 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 985006000911 putative active site [active] 985006000912 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 985006000913 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 985006000914 putative active site cavity [active] 985006000915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 985006000916 Nucleoside recognition; Region: Gate; pfam07670 985006000917 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 985006000918 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 985006000919 PGAP1-like protein; Region: PGAP1; pfam07819 985006000920 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 985006000921 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985006000922 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 985006000923 putative active site [active] 985006000924 putative FMN binding site [chemical binding]; other site 985006000925 putative substrate binding site [chemical binding]; other site 985006000926 putative catalytic residue [active] 985006000927 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 985006000928 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 985006000929 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 985006000930 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 985006000931 lipoyl attachment site [posttranslational modification]; other site 985006000932 Replication protein C N-terminal domain; Region: RP-C; pfam03428 985006000933 Macro domain, Unknown family 1. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_1; cd02906 985006000934 putative ADP-ribose binding site [chemical binding]; other site 985006000935 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 985006000936 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 985006000937 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 985006000938 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 985006000939 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 985006000940 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 985006000941 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 985006000942 active site 985006000943 P-loop; other site 985006000944 phosphorylation site [posttranslational modification] 985006000945 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 985006000946 active site 985006000947 phosphorylation site [posttranslational modification] 985006000948 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985006000949 HTH domain; Region: HTH_11; pfam08279 985006000950 HTH domain; Region: HTH_11; pfam08279 985006000951 PRD domain; Region: PRD; pfam00874 985006000952 PRD domain; Region: PRD; pfam00874 985006000953 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 985006000954 active site 985006000955 P-loop; other site 985006000956 phosphorylation site [posttranslational modification] 985006000957 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 985006000958 active site 985006000959 phosphorylation site [posttranslational modification] 985006000960 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985006000961 MarR family; Region: MarR_2; pfam12802 985006000962 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 985006000963 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 985006000964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4815 985006000965 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 985006000966 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 985006000967 putative substrate translocation pore; other site 985006000968 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 985006000970 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 985006000971 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 985006000972 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 985006000973 Predicted flavoprotein [General function prediction only]; Region: COG0431 985006000974 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985006000975 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 985006000976 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985006000977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985006000978 Imelysin; Region: Peptidase_M75; pfam09375 985006000979 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 985006000980 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 985006000981 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 985006000982 HTH-like domain; Region: HTH_21; pfam13276 985006000983 Integrase core domain; Region: rve; pfam00665 985006000984 Integrase core domain; Region: rve_3; cl15866 985006000985 Transposase; Region: HTH_Tnp_1; cl17663 985006000986 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 985006000987 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 985006000988 Helix-turn-helix domain; Region: HTH_28; pfam13518 985006000989 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 985006000990 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 985006000991 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 985006000992 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 985006000993 non-specific DNA binding site [nucleotide binding]; other site 985006000994 salt bridge; other site 985006000995 sequence-specific DNA binding site [nucleotide binding]; other site 985006000996 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 985006000997 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985006000998 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 985006000999 Walker A/P-loop; other site 985006001000 ATP binding site [chemical binding]; other site 985006001001 Q-loop/lid; other site 985006001002 ABC transporter signature motif; other site 985006001003 Walker B; other site 985006001004 D-loop; other site 985006001005 H-loop/switch region; other site 985006001006 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 985006001007 Predicted membrane protein [Function unknown]; Region: COG4292 985006001008 putative acyltransferase; Provisional; Region: PRK05790 985006001009 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 985006001010 dimer interface [polypeptide binding]; other site 985006001011 active site 985006001012 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 985006001013 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 985006001014 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Region: met_syn_B12ind; TIGR01371 985006001015 THF binding site; other site 985006001016 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 985006001017 substrate binding site [chemical binding]; other site 985006001018 THF binding site; other site 985006001019 zinc-binding site [ion binding]; other site 985006001020 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 985006001021 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 985006001022 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 985006001023 FAD binding site [chemical binding]; other site 985006001024 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 985006001025 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 985006001026 homodimer interface [polypeptide binding]; other site 985006001027 substrate-cofactor binding pocket; other site 985006001028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006001029 catalytic residue [active] 985006001030 cystathionine gamma-synthase; Reviewed; Region: PRK08247 985006001031 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 985006001032 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985006001033 catalytic residue [active] 985006001034 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 985006001035 ParB-like nuclease domain; Region: ParB; smart00470 985006001036 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 985006001037 Mechanosensitive ion channel; Region: MS_channel; pfam00924 985006001038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4481 985006001039 GTP-binding protein YchF; Reviewed; Region: PRK09601 985006001040 YchF GTPase; Region: YchF; cd01900 985006001041 G1 box; other site 985006001042 GTP/Mg2+ binding site [chemical binding]; other site 985006001043 Switch I region; other site 985006001044 G2 box; other site 985006001045 Switch II region; other site 985006001046 G3 box; other site 985006001047 G4 box; other site 985006001048 G5 box; other site 985006001049 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 985006001050 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 985006001051 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 985006001052 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 985006001053 dimer interface [polypeptide binding]; other site 985006001054 ssDNA binding site [nucleotide binding]; other site 985006001055 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985006001056 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 985006001057 Abi-like protein; Region: Abi_2; pfam07751 985006001059 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006001060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 985006001061 Predicted membrane protein [Function unknown]; Region: COG3212 985006001062 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 985006001063 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 985006001064 non-specific DNA binding site [nucleotide binding]; other site 985006001065 salt bridge; other site 985006001066 sequence-specific DNA binding site [nucleotide binding]; other site 985006001067 Predicted membrane protein [Function unknown]; Region: COG2261 985006001068 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 985006001069 catalytic core [active] 985006001070 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 985006001071 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 985006001072 catalytic residue [active] 985006001073 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 985006001074 catalytic residues [active] 985006001075 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985006001076 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985006001077 peroxiredoxin; Region: AhpC; TIGR03137 985006001078 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 985006001079 dimer interface [polypeptide binding]; other site 985006001080 decamer (pentamer of dimers) interface [polypeptide binding]; other site 985006001081 catalytic triad [active] 985006001082 peroxidatic and resolving cysteines [active] 985006001083 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 985006001084 dimer interface [polypeptide binding]; other site 985006001085 FMN binding site [chemical binding]; other site 985006001086 NADPH bind site [chemical binding]; other site 985006001087 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 985006001088 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 985006001089 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985006001090 active site 985006001091 xanthine permease; Region: pbuX; TIGR03173 985006001092 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 985006001093 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 985006001094 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 985006001095 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 985006001096 active site 985006001097 GMP synthase; Reviewed; Region: guaA; PRK00074 985006001098 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 985006001099 AMP/PPi binding site [chemical binding]; other site 985006001100 candidate oxyanion hole; other site 985006001101 catalytic triad [active] 985006001102 potential glutamine specificity residues [chemical binding]; other site 985006001103 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 985006001104 ATP Binding subdomain [chemical binding]; other site 985006001105 Ligand Binding sites [chemical binding]; other site 985006001106 Dimerization subdomain; other site 985006001108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 985006001109 Transposase; Region: HTH_Tnp_1; cl17663 985006001110 CDS contains a frameshift after codon 118. Frameshift occurs at a poly A heptamer 985006001111 Protein of unknown function (DUF523); Region: DUF523; pfam04463 985006001112 Predicted membrane protein [Function unknown]; Region: COG3759 985006001113 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 985006001114 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 985006001115 NADP binding site [chemical binding]; other site 985006001116 Genomic island niSa-alpha 985006001117 superantigen-like protein; Reviewed; Region: PRK13037 985006001118 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985006001119 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006001120 superantigen-like protein; Reviewed; Region: PRK13041 985006001121 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985006001122 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006001123 superantigen-like protein; Reviewed; Region: PRK13335 985006001124 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985006001125 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006001126 superantigen-like protein; Reviewed; Region: PRK13042 985006001127 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985006001128 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006001129 superantigen-like protein 5; Reviewed; Region: PRK13035 985006001130 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985006001131 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006001132 superantigen-like protein 7; Reviewed; Region: PRK13346 985006001133 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985006001134 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006001135 superantigen-like protein; Reviewed; Region: PRK13039 985006001136 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985006001137 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006001138 superantigen-like protein; Reviewed; Region: PRK13345 985006001139 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985006001140 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006001141 superantigen-like protein; Reviewed; Region: PRK13038 985006001142 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985006001143 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006001144 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 985006001145 HsdM N-terminal domain; Region: HsdM_N; pfam12161 985006001146 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 985006001147 S-adenosylmethionine binding site [chemical binding]; other site 985006001148 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 985006001149 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 985006001150 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 985006001151 superantigen-like protein; Reviewed; Region: PRK13036 985006001152 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985006001153 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006001154 Protein of unknown function, DUF576; Region: DUF576; pfam04507 985006001155 Protein of unknown function, DUF576; Region: DUF576; pfam04507 985006001156 Protein of unknown function, DUF576; Region: DUF576; pfam04507 985006001157 Protein of unknown function, DUF576; Region: DUF576; pfam04507 985006001158 Protein of unknown function, DUF576; Region: DUF576; pfam04507 985006001159 Protein of unknown function, DUF576; Region: DUF576; pfam04507 985006001160 Protein of unknown function, DUF576; Region: DUF576; pfam04507 985006001161 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 985006001162 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 985006001163 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 985006001164 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 985006001165 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 985006001166 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 985006001167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 985006001168 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 985006001169 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 985006001170 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 985006001171 active site 985006001172 Esterase/lipase [General function prediction only]; Region: COG1647 985006001173 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985006001174 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 985006001175 Na2 binding site [ion binding]; other site 985006001176 putative substrate binding site 1 [chemical binding]; other site 985006001177 Na binding site 1 [ion binding]; other site 985006001178 putative substrate binding site 2 [chemical binding]; other site 985006001179 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 985006001180 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 985006001181 dimer interface [polypeptide binding]; other site 985006001182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006001183 catalytic residue [active] 985006001184 cystathionine beta-lyase; Provisional; Region: PRK07671 985006001185 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 985006001186 homodimer interface [polypeptide binding]; other site 985006001187 substrate-cofactor binding pocket; other site 985006001188 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006001189 catalytic residue [active] 985006001190 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 985006001191 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 985006001192 Walker A/P-loop; other site 985006001193 ATP binding site [chemical binding]; other site 985006001194 Q-loop/lid; other site 985006001195 ABC transporter signature motif; other site 985006001196 Walker B; other site 985006001197 D-loop; other site 985006001198 H-loop/switch region; other site 985006001199 NIL domain; Region: NIL; pfam09383 985006001200 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 985006001201 dimer interface [polypeptide binding]; other site 985006001202 conserved gate region; other site 985006001203 ABC-ATPase subunit interface; other site 985006001204 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 985006001205 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 985006001206 LysM domain; Region: LysM; pfam01476 985006001207 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985006001208 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985006001209 Surface antigen [General function prediction only]; Region: COG3942 985006001210 CHAP domain; Region: CHAP; pfam05257 985006001211 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 985006001212 nudix motif; other site 985006001213 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006001214 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985006001215 Coenzyme A binding pocket [chemical binding]; other site 985006001216 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 985006001217 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 985006001218 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985006001219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985006001220 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 985006001221 dimerization interface [polypeptide binding]; other site 985006001222 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 985006001223 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 985006001224 active site 985006001225 dimer interface [polypeptide binding]; other site 985006001226 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 985006001227 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 985006001228 active site 985006001229 FMN binding site [chemical binding]; other site 985006001230 substrate binding site [chemical binding]; other site 985006001231 3Fe-4S cluster binding site [ion binding]; other site 985006001232 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 985006001233 domain interface; other site 985006001234 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 985006001235 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 985006001236 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 985006001237 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 985006001238 active site turn [active] 985006001239 phosphorylation site [posttranslational modification] 985006001240 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985006001241 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 985006001242 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 985006001243 Ca binding site [ion binding]; other site 985006001244 active site 985006001245 catalytic site [active] 985006001246 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 985006001247 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985006001248 DNA-binding site [nucleotide binding]; DNA binding site 985006001249 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 985006001250 UTRA domain; Region: UTRA; pfam07702 985006001251 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985006001252 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006001253 Coenzyme A binding pocket [chemical binding]; other site 985006001254 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 985006001255 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 985006001256 Walker A motif; other site 985006001257 ATP binding site [chemical binding]; other site 985006001258 Walker B motif; other site 985006001259 arginine finger; other site 985006001260 hypothetical protein; Validated; Region: PRK00153 985006001261 recombination protein RecR; Reviewed; Region: recR; PRK00076 985006001262 RecR protein; Region: RecR; pfam02132 985006001263 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 985006001264 putative active site [active] 985006001265 putative metal-binding site [ion binding]; other site 985006001266 tetramer interface [polypeptide binding]; other site 985006001267 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 985006001268 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 985006001269 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985006001270 catalytic residue [active] 985006001271 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 985006001272 thymidylate kinase; Validated; Region: tmk; PRK00698 985006001273 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 985006001274 TMP-binding site; other site 985006001275 ATP-binding site [chemical binding]; other site 985006001276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3870 985006001277 DNA polymerase III subunit delta'; Validated; Region: PRK08058 985006001278 DNA polymerase III subunit delta'; Validated; Region: PRK08485 985006001279 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 985006001280 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467 985006001281 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 985006001282 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 985006001283 S-adenosylmethionine binding site [chemical binding]; other site 985006001284 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 985006001285 GIY-YIG motif/motif A; other site 985006001286 putative active site [active] 985006001287 putative metal binding site [ion binding]; other site 985006001288 Predicted methyltransferases [General function prediction only]; Region: COG0313 985006001289 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 985006001290 putative SAM binding site [chemical binding]; other site 985006001291 putative homodimer interface [polypeptide binding]; other site 985006001292 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 985006001293 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 985006001294 active site 985006001295 HIGH motif; other site 985006001296 KMSKS motif; other site 985006001297 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 985006001298 tRNA binding surface [nucleotide binding]; other site 985006001299 anticodon binding site; other site 985006001300 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 985006001301 dimer interface [polypeptide binding]; other site 985006001302 putative tRNA-binding site [nucleotide binding]; other site 985006001303 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 985006001304 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 985006001305 active site 985006001306 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 985006001307 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 985006001308 putative active site [active] 985006001309 putative metal binding site [ion binding]; other site 985006001310 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 985006001311 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 985006001312 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 985006001313 S-adenosylmethionine binding site [chemical binding]; other site 985006001314 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 985006001315 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 985006001316 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 985006001317 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985006001318 pur operon repressor; Provisional; Region: PRK09213 985006001319 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 985006001320 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985006001321 active site 985006001322 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 985006001323 homotrimer interaction site [polypeptide binding]; other site 985006001324 putative active site [active] 985006001325 regulatory protein SpoVG; Reviewed; Region: PRK13259 985006001326 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 985006001327 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 985006001328 Substrate binding site; other site 985006001329 Mg++ binding site; other site 985006001330 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 985006001331 active site 985006001332 substrate binding site [chemical binding]; other site 985006001333 CoA binding site [chemical binding]; other site 985006001334 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 985006001335 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 985006001336 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985006001337 active site 985006001338 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 985006001339 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 985006001340 5S rRNA interface [nucleotide binding]; other site 985006001341 CTC domain interface [polypeptide binding]; other site 985006001342 L16 interface [polypeptide binding]; other site 985006001343 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 985006001344 putative active site [active] 985006001345 catalytic residue [active] 985006001346 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 985006001347 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 985006001348 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 985006001349 ATP binding site [chemical binding]; other site 985006001350 putative Mg++ binding site [ion binding]; other site 985006001351 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 985006001352 nucleotide binding region [chemical binding]; other site 985006001353 ATP-binding site [chemical binding]; other site 985006001354 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 985006001355 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 985006001356 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 985006001357 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 985006001358 putative SAM binding site [chemical binding]; other site 985006001359 putative homodimer interface [polypeptide binding]; other site 985006001360 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 985006001361 homodimer interface [polypeptide binding]; other site 985006001362 metal binding site [ion binding]; metal-binding site 985006001363 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 985006001364 RNA binding surface [nucleotide binding]; other site 985006001365 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 985006001366 Septum formation initiator; Region: DivIC; pfam04977 985006001367 hypothetical protein; Provisional; Region: PRK08582 985006001368 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 985006001369 RNA binding site [nucleotide binding]; other site 985006001370 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 985006001371 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 985006001372 Ligand Binding Site [chemical binding]; other site 985006001373 TilS substrate C-terminal domain; Region: TilS_C; smart00977 985006001374 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 985006001375 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985006001376 active site 985006001377 FtsH Extracellular; Region: FtsH_ext; pfam06480 985006001378 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 985006001379 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 985006001380 Walker A motif; other site 985006001381 ATP binding site [chemical binding]; other site 985006001382 Walker B motif; other site 985006001383 arginine finger; other site 985006001384 Peptidase family M41; Region: Peptidase_M41; pfam01434 985006001385 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 985006001386 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 985006001387 dimerization interface [polypeptide binding]; other site 985006001388 domain crossover interface; other site 985006001389 redox-dependent activation switch; other site 985006001390 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 985006001391 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 985006001392 dimer interface [polypeptide binding]; other site 985006001393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006001394 catalytic residue [active] 985006001395 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 985006001396 dihydropteroate synthase; Region: DHPS; TIGR01496 985006001397 substrate binding pocket [chemical binding]; other site 985006001398 dimer interface [polypeptide binding]; other site 985006001399 inhibitor binding site; inhibition site 985006001400 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 985006001401 homooctamer interface [polypeptide binding]; other site 985006001402 active site 985006001403 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 985006001404 catalytic center binding site [active] 985006001405 ATP binding site [chemical binding]; other site 985006001406 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 985006001407 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 985006001408 dimer interface [polypeptide binding]; other site 985006001409 putative anticodon binding site; other site 985006001410 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 985006001411 motif 1; other site 985006001412 active site 985006001413 motif 2; other site 985006001414 motif 3; other site 985006001415 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 985006001416 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985006001417 DNA-binding site [nucleotide binding]; DNA binding site 985006001418 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 985006001419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006001420 homodimer interface [polypeptide binding]; other site 985006001421 catalytic residue [active] 985006001422 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 985006001423 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 985006001424 active site 985006001425 multimer interface [polypeptide binding]; other site 985006001426 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 985006001427 predicted active site [active] 985006001428 catalytic triad [active] 985006001429 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 985006001430 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 985006001431 Nucleoside recognition; Region: Gate; pfam07670 985006001432 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 985006001433 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 985006001434 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 985006001435 UvrB/uvrC motif; Region: UVR; pfam02151 985006001436 Arginine kinase [Amino acid transport and metabolism]; Region: COG3869 985006001437 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 985006001438 ADP binding site [chemical binding]; other site 985006001439 phosphagen binding site; other site 985006001440 substrate specificity loop; other site 985006001441 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 985006001442 Clp amino terminal domain; Region: Clp_N; pfam02861 985006001443 Clp amino terminal domain; Region: Clp_N; pfam02861 985006001444 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 985006001445 Walker A motif; other site 985006001446 ATP binding site [chemical binding]; other site 985006001447 Walker B motif; other site 985006001448 arginine finger; other site 985006001449 UvrB/uvrC motif; Region: UVR; pfam02151 985006001450 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 985006001451 Walker A motif; other site 985006001452 ATP binding site [chemical binding]; other site 985006001453 Walker B motif; other site 985006001454 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 985006001455 DNA repair protein RadA; Provisional; Region: PRK11823 985006001456 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 985006001457 Walker A motif/ATP binding site; other site 985006001458 ATP binding site [chemical binding]; other site 985006001459 Walker B motif; other site 985006001460 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 985006001461 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 985006001462 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 985006001463 putative active site [active] 985006001464 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 985006001465 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 985006001466 active site 985006001467 HIGH motif; other site 985006001468 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 985006001469 active site 985006001470 KMSKS motif; other site 985006001471 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 985006001472 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 985006001473 trimer interface [polypeptide binding]; other site 985006001474 active site 985006001475 substrate binding site [chemical binding]; other site 985006001476 CoA binding site [chemical binding]; other site 985006001477 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 985006001478 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 985006001479 active site 985006001480 HIGH motif; other site 985006001481 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 985006001482 KMSKS motif; other site 985006001483 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 985006001484 tRNA binding surface [nucleotide binding]; other site 985006001485 anticodon binding site; other site 985006001486 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 985006001487 active site 985006001488 dimerization interface [polypeptide binding]; other site 985006001489 metal binding site [ion binding]; metal-binding site 985006001490 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 985006001491 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 985006001492 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 985006001493 Predicted RNA-binding protein containing a PIN domain [General function prediction only]; Region: COG3688 985006001494 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 985006001495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985006001496 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 985006001497 DNA binding residues [nucleotide binding] 985006001498 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 985006001499 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 985006001500 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 985006001501 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 985006001502 putative homodimer interface [polypeptide binding]; other site 985006001503 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 985006001504 heterodimer interface [polypeptide binding]; other site 985006001505 homodimer interface [polypeptide binding]; other site 985006001506 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 985006001507 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 985006001508 23S rRNA interface [nucleotide binding]; other site 985006001509 L7/L12 interface [polypeptide binding]; other site 985006001510 putative thiostrepton binding site; other site 985006001511 L25 interface [polypeptide binding]; other site 985006001512 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 985006001513 mRNA/rRNA interface [nucleotide binding]; other site 985006001514 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 985006001515 23S rRNA interface [nucleotide binding]; other site 985006001516 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 985006001517 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 985006001518 peripheral dimer interface [polypeptide binding]; other site 985006001519 core dimer interface [polypeptide binding]; other site 985006001520 L10 interface [polypeptide binding]; other site 985006001521 L11 interface [polypeptide binding]; other site 985006001522 putative EF-Tu interaction site [polypeptide binding]; other site 985006001523 putative EF-G interaction site [polypeptide binding]; other site 985006001524 Methyltransferase domain; Region: Methyltransf_31; pfam13847 985006001525 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 985006001526 S-adenosylmethionine binding site [chemical binding]; other site 985006001527 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 985006001528 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 985006001529 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 985006001530 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 985006001531 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 985006001532 RPB10 interaction site [polypeptide binding]; other site 985006001533 RPB1 interaction site [polypeptide binding]; other site 985006001534 RPB11 interaction site [polypeptide binding]; other site 985006001535 RPB3 interaction site [polypeptide binding]; other site 985006001536 RPB12 interaction site [polypeptide binding]; other site 985006001537 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 985006001538 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 985006001539 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 985006001540 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 985006001541 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 985006001542 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 985006001543 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 985006001544 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 985006001545 G-loop; other site 985006001546 DNA binding site [nucleotide binding] 985006001547 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13600 985006001548 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 985006001549 S17 interaction site [polypeptide binding]; other site 985006001550 S8 interaction site; other site 985006001551 16S rRNA interaction site [nucleotide binding]; other site 985006001552 streptomycin interaction site [chemical binding]; other site 985006001553 23S rRNA interaction site [nucleotide binding]; other site 985006001554 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 985006001555 30S ribosomal protein S7; Validated; Region: PRK05302 985006001556 elongation factor G; Reviewed; Region: PRK00007 985006001557 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 985006001558 G1 box; other site 985006001559 putative GEF interaction site [polypeptide binding]; other site 985006001560 GTP/Mg2+ binding site [chemical binding]; other site 985006001561 Switch I region; other site 985006001562 G2 box; other site 985006001563 G3 box; other site 985006001564 Switch II region; other site 985006001565 G4 box; other site 985006001566 G5 box; other site 985006001567 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 985006001568 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 985006001569 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 985006001570 elongation factor Tu; Reviewed; Region: PRK00049 985006001571 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 985006001572 G1 box; other site 985006001573 GEF interaction site [polypeptide binding]; other site 985006001574 GTP/Mg2+ binding site [chemical binding]; other site 985006001575 Switch I region; other site 985006001576 G2 box; other site 985006001577 G3 box; other site 985006001578 Switch II region; other site 985006001579 G4 box; other site 985006001580 G5 box; other site 985006001581 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 985006001582 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 985006001583 Antibiotic Binding Site [chemical binding]; other site 985006001584 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985006001585 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985006001586 metal binding site [ion binding]; metal-binding site 985006001587 dimer interface [polypeptide binding]; other site 985006001588 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 985006001589 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 985006001590 substrate-cofactor binding pocket; other site 985006001591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006001592 catalytic residue [active] 985006001593 chaperone protein HchA; Provisional; Region: PRK04155 985006001594 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 985006001595 conserved cys residue [active] 985006001596 ribulokinase; Provisional; Region: PRK04123 985006001597 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 985006001598 N- and C-terminal domain interface [polypeptide binding]; other site 985006001599 active site 985006001600 MgATP binding site [chemical binding]; other site 985006001601 catalytic site [active] 985006001602 metal binding site [ion binding]; metal-binding site 985006001603 carbohydrate binding site [chemical binding]; other site 985006001604 homodimer interface [polypeptide binding]; other site 985006001605 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 985006001606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985006001607 NAD(P) binding site [chemical binding]; other site 985006001608 active site 985006001609 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 985006001610 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 985006001611 homodimer interface [polypeptide binding]; other site 985006001612 substrate-cofactor binding pocket; other site 985006001613 catalytic residue [active] 985006001614 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 985006001615 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 985006001616 motif II; other site 985006001617 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 985006001618 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 985006001619 Substrate-binding site [chemical binding]; other site 985006001620 Substrate specificity [chemical binding]; other site 985006001621 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 985006001622 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 985006001623 Substrate-binding site [chemical binding]; other site 985006001624 Substrate specificity [chemical binding]; other site 985006001625 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 985006001626 nucleoside/Zn binding site; other site 985006001627 dimer interface [polypeptide binding]; other site 985006001628 catalytic motif [active] 985006001629 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 985006001630 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985006001631 active site 985006001632 motif I; other site 985006001633 motif II; other site 985006001634 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 985006001635 Predicted flavoprotein [General function prediction only]; Region: COG0431 985006001636 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985006001638 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 985006001639 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985006001640 Cna protein B-type domain; Region: Cna_B; pfam05738 985006001641 Cna protein B-type domain; Region: Cna_B; pfam05738 985006001642 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 985006001643 Cna protein B-type domain; Region: Cna_B; pfam05738 985006001644 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 985006001645 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 985006001646 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985006001647 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 985006001648 Cna protein B-type domain; Region: Cna_B; pfam05738 985006001649 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 985006001650 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 985006001651 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 985006001652 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985006001653 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 985006001654 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 985006001655 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985006001656 putative GTP cyclohydrolase; Provisional; Region: PRK13674 985006001657 bacillithiol biosynthesis deacetylase BshB2; Region: thiol_BshB2; TIGR04000 985006001658 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 985006001659 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 985006001660 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 985006001661 active site 985006001662 trimer interface [polypeptide binding]; other site 985006001663 allosteric site; other site 985006001664 active site lid [active] 985006001665 hexamer (dimer of trimers) interface [polypeptide binding]; other site 985006001666 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 985006001667 active site 985006001668 dimer interface [polypeptide binding]; other site 985006001669 magnesium binding site [ion binding]; other site 985006001670 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 985006001671 tetramer interface [polypeptide binding]; other site 985006001672 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985006001673 active site 985006001674 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 985006001675 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 985006001676 motif II; other site 985006001677 proline/glycine betaine transporter; Provisional; Region: PRK10642 985006001678 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 985006001679 putative substrate translocation pore; other site 985006001680 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 985006001681 Adenylate forming domain, Class I; Region: AFD_class_I; cd04433 985006001682 acyl-activating enzyme (AAE) consensus motif; other site 985006001683 AMP binding site [chemical binding]; other site 985006001684 active site 985006001685 CoA binding site [chemical binding]; other site 985006001686 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 985006001687 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 985006001688 dimer interface [polypeptide binding]; other site 985006001689 active site 985006001690 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 985006001691 dimer interface [polypeptide binding]; other site 985006001692 substrate binding site [chemical binding]; other site 985006001693 ATP binding site [chemical binding]; other site 985006001694 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 985006001695 ligand binding site [chemical binding]; other site 985006001696 active site 985006001697 UGI interface [polypeptide binding]; other site 985006001698 catalytic site [active] 985006001699 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 985006001700 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 985006001701 Uncharacterized conserved protein [Function unknown]; Region: COG3610 985006001702 Uncharacterized conserved protein [Function unknown]; Region: COG2966 985006001703 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 985006001704 putative heme peroxidase; Provisional; Region: PRK12276 985006001705 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 985006001706 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 985006001707 mevalonate kinase; Region: mevalon_kin; TIGR00549 985006001708 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 985006001709 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985006001710 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 985006001711 diphosphomevalonate decarboxylase; Region: PLN02407 985006001712 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 985006001713 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 985006001714 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985006001715 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 985006001716 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 985006001717 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 985006001718 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985006001719 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985006001720 Predicted transcriptional regulator [Transcription]; Region: COG1959 985006001721 Transcriptional regulator; Region: Rrf2; pfam02082 985006001722 LXG domain of WXG superfamily; Region: LXG; pfam04740 985006001723 Protein of unknown function (DUF443); Region: DUF443; pfam04276 985006001724 Protein of unknown function (DUF443); Region: DUF443; pfam04276 985006001725 Protein of unknown function (DUF443); Region: DUF443; pfam04276 985006001726 CDS contains a nonsense mutation (opal) after codon 41 985006001727 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 985006001728 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985006001729 active site 985006001730 catalytic tetrad [active] 985006001731 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 985006001732 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985006001733 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985006001734 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006001735 Coenzyme A binding pocket [chemical binding]; other site 985006001736 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 985006001737 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985006001738 Zn2+ binding site [ion binding]; other site 985006001739 Mg2+ binding site [ion binding]; other site 985006001740 YwhD family; Region: YwhD; pfam08741 985006001741 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 985006001742 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 985006001743 NAD binding site [chemical binding]; other site 985006001744 substrate binding site [chemical binding]; other site 985006001745 catalytic Zn binding site [ion binding]; other site 985006001746 tetramer interface [polypeptide binding]; other site 985006001747 structural Zn binding site [ion binding]; other site 985006001748 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 985006001749 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 985006001750 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 985006001751 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 985006001752 active site 985006001753 HIGH motif; other site 985006001754 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 985006001755 KMSK motif region; other site 985006001756 tRNA binding surface [nucleotide binding]; other site 985006001757 DALR anticodon binding domain; Region: DALR_1; smart00836 985006001758 anticodon binding site; other site 985006001759 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 985006001760 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 985006001761 minor groove reading motif; other site 985006001762 helix-hairpin-helix signature motif; other site 985006001763 substrate binding pocket [chemical binding]; other site 985006001764 active site 985006001765 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 985006001766 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 985006001767 putative binding site residues; other site 985006001768 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 985006001769 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 985006001770 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 985006001771 ABC-ATPase subunit interface; other site 985006001772 dimer interface [polypeptide binding]; other site 985006001773 putative PBP binding regions; other site 985006001774 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 985006001775 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 985006001776 motif II; other site 985006001777 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 985006001778 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985006001779 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 985006001780 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985006001781 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 985006001782 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985006001783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 985006001784 Protein of unknown function, DUF606; Region: DUF606; pfam04657 985006001785 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 985006001786 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 985006001787 active site 985006001788 DNA binding site [nucleotide binding] 985006001789 Int/Topo IB signature motif; other site 985006001790 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12646 985006001791 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 985006001792 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 985006001793 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12574 985006001794 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12660 985006001795 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 985006001796 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 985006001797 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 985006001798 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12657 985006001799 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12586 985006001800 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 985006001801 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 985006001802 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 985006001803 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 985006001804 metal binding site [ion binding]; metal-binding site 985006001805 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 985006001806 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 985006001807 ABC-ATPase subunit interface; other site 985006001808 dimer interface [polypeptide binding]; other site 985006001809 putative PBP binding regions; other site 985006001810 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 985006001811 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 985006001812 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 985006001813 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 985006001814 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 985006001815 FeoA domain; Region: FeoA; pfam04023 985006001816 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 985006001817 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 985006001818 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 985006001819 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 985006001820 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 985006001821 Walker A/P-loop; other site 985006001822 ATP binding site [chemical binding]; other site 985006001823 Q-loop/lid; other site 985006001824 ABC transporter signature motif; other site 985006001825 Walker B; other site 985006001826 D-loop; other site 985006001827 H-loop/switch region; other site 985006001828 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 985006001829 ABC-2 type transporter; Region: ABC2_membrane; cl17235 985006001830 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 985006001831 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 985006001832 active site 985006001833 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 985006001834 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 985006001835 active site 985006001836 nucleotide binding site [chemical binding]; other site 985006001837 HIGH motif; other site 985006001838 KMSKS motif; other site 985006001839 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 985006001840 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 985006001841 Domain of unknown function (DUF1958); Region: DUF1958; pfam09211 985006001842 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985006001843 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985006001844 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006001845 Walker A/P-loop; other site 985006001846 ATP binding site [chemical binding]; other site 985006001847 Q-loop/lid; other site 985006001848 ABC transporter signature motif; other site 985006001849 Walker B; other site 985006001850 D-loop; other site 985006001851 H-loop/switch region; other site 985006001852 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 985006001853 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 985006001854 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 985006001855 Uncharacterized conserved protein [Function unknown]; Region: COG1284 985006001856 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985006001857 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 985006001858 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985006001859 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985006001860 Walker A/P-loop; other site 985006001861 ATP binding site [chemical binding]; other site 985006001862 Q-loop/lid; other site 985006001863 ABC transporter signature motif; other site 985006001864 Walker B; other site 985006001865 D-loop; other site 985006001866 H-loop/switch region; other site 985006001867 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985006001868 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 985006001869 ABC-ATPase subunit interface; other site 985006001870 dimer interface [polypeptide binding]; other site 985006001871 putative PBP binding regions; other site 985006001872 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 985006001873 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 985006001874 ABC-ATPase subunit interface; other site 985006001875 dimer interface [polypeptide binding]; other site 985006001876 putative PBP binding regions; other site 985006001877 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 985006001878 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 985006001879 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 985006001880 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 985006001881 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 985006001882 Uncharacterized membrane protein [Function unknown]; Region: COG3949 985006001883 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 985006001884 Na binding site [ion binding]; other site 985006001885 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 985006001886 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 985006001887 substrate binding pocket [chemical binding]; other site 985006001888 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 985006001889 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985006001890 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006001891 Coenzyme A binding pocket [chemical binding]; other site 985006001892 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985006001893 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 985006001894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985006001895 NAD(P) binding site [chemical binding]; other site 985006001896 active site 985006001897 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985006001898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006001899 active site 985006001900 phosphorylation site [posttranslational modification] 985006001901 intermolecular recognition site; other site 985006001902 dimerization interface [polypeptide binding]; other site 985006001903 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 985006001904 DNA binding site [nucleotide binding] 985006001905 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985006001906 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 985006001907 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 985006001908 ATP binding site [chemical binding]; other site 985006001909 Mg2+ binding site [ion binding]; other site 985006001910 G-X-G motif; other site 985006001911 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985006001912 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 985006001913 Walker A/P-loop; other site 985006001914 ATP binding site [chemical binding]; other site 985006001915 Q-loop/lid; other site 985006001916 ABC transporter signature motif; other site 985006001917 Walker B; other site 985006001918 D-loop; other site 985006001919 H-loop/switch region; other site 985006001920 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 985006001921 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 985006001922 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985006001923 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 985006001924 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985006001925 Surface antigen [General function prediction only]; Region: COG3942 985006001926 CHAP domain; Region: CHAP; pfam05257 985006001927 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 985006001928 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 985006001929 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985006001930 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 985006001931 hypothetical protein; Provisional; Region: PRK12378 985006001932 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 985006001933 Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]; Region: COG2306 985006001934 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985006001935 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985006001936 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 985006001937 dimerization interface [polypeptide binding]; other site 985006001938 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 985006001939 sugar efflux transporter; Region: 2A0120; TIGR00899 985006001940 putative substrate translocation pore; other site 985006001941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 985006001942 Serine incorporator (Serinc); Region: Serinc; pfam03348 985006001943 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006001944 Coenzyme A binding pocket [chemical binding]; other site 985006001945 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 985006001946 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 985006001947 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 985006001948 hypothetical protein; Validated; Region: PRK00124 985006001949 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 985006001950 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 985006001951 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 985006001952 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985006001953 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 985006001954 Walker A/P-loop; other site 985006001955 ATP binding site [chemical binding]; other site 985006001956 Q-loop/lid; other site 985006001957 ABC transporter signature motif; other site 985006001958 Walker B; other site 985006001959 D-loop; other site 985006001960 H-loop/switch region; other site 985006001961 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 985006001962 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985006001963 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 985006001964 Walker A/P-loop; other site 985006001965 ATP binding site [chemical binding]; other site 985006001966 Q-loop/lid; other site 985006001967 ABC transporter signature motif; other site 985006001968 Walker B; other site 985006001969 D-loop; other site 985006001970 H-loop/switch region; other site 985006001971 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985006001972 MarR family; Region: MarR; pfam01047 985006001973 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 985006001974 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 985006001975 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 985006001976 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 985006001977 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985006001978 active site 985006001979 catalytic tetrad [active] 985006001980 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 985006001981 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 985006001982 transmembrane helices; other site 985006001983 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 985006001984 DNA photolyase; Region: DNA_photolyase; pfam00875 985006001985 Predicted membrane protein [Function unknown]; Region: COG4330 985006001986 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 985006001987 trimer interface [polypeptide binding]; other site 985006001988 putative Zn binding site [ion binding]; other site 985006001989 D-galactonate transporter; Region: 2A0114; TIGR00893 985006001990 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 985006001991 putative substrate translocation pore; other site 985006001992 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 985006001993 putative deacylase active site [active] 985006001994 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 985006001995 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 985006001996 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 985006001997 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 985006001998 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 985006001999 putative substrate binding site [chemical binding]; other site 985006002000 putative ATP binding site [chemical binding]; other site 985006002001 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 985006002002 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 985006002003 active site 985006002004 phosphorylation site [posttranslational modification] 985006002005 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 985006002006 active site 985006002007 P-loop; other site 985006002008 phosphorylation site [posttranslational modification] 985006002009 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 985006002010 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 985006002011 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 985006002012 active site 985006002013 dimer interface [polypeptide binding]; other site 985006002014 Domain of unknown function DUF21; Region: DUF21; pfam01595 985006002015 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 985006002016 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 985006002017 Transporter associated domain; Region: CorC_HlyC; pfam03471 985006002018 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 985006002019 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985006002020 active site 985006002021 catalytic tetrad [active] 985006002022 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 985006002023 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 985006002024 Ligand binding site; other site 985006002025 Putative Catalytic site; other site 985006002026 DXD motif; other site 985006002027 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985006002028 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 985006002029 dimer interface [polypeptide binding]; other site 985006002030 phosphorylation site [posttranslational modification] 985006002031 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 985006002032 ATP binding site [chemical binding]; other site 985006002033 Mg2+ binding site [ion binding]; other site 985006002034 G-X-G motif; other site 985006002035 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985006002036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006002037 active site 985006002038 phosphorylation site [posttranslational modification] 985006002039 intermolecular recognition site; other site 985006002040 dimerization interface [polypeptide binding]; other site 985006002041 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 985006002042 DNA binding site [nucleotide binding] 985006002043 DoxX; Region: DoxX; pfam07681 985006002044 Electron transfer DM13; Region: DM13; pfam10517 985006002045 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 985006002046 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 985006002047 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 985006002048 active site 985006002049 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 985006002050 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 985006002051 Ligand Binding Site [chemical binding]; other site 985006002052 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 985006002053 Glutamine amidotransferase class-I; Region: GATase; pfam00117 985006002054 glutamine binding [chemical binding]; other site 985006002055 catalytic triad [active] 985006002056 aminodeoxychorismate synthase; Provisional; Region: PRK07508 985006002057 chorismate binding enzyme; Region: Chorismate_bind; cl10555 985006002058 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 985006002059 substrate-cofactor binding pocket; other site 985006002060 Aminotransferase class IV; Region: Aminotran_4; pfam01063 985006002061 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006002062 catalytic residue [active] 985006002063 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 985006002064 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 985006002065 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 985006002066 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 985006002067 Sulfatase; Region: Sulfatase; pfam00884 985006002068 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 985006002069 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985006002070 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985006002071 ABC transporter; Region: ABC_tran_2; pfam12848 985006002072 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985006002073 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 985006002074 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 985006002075 ATP binding site [chemical binding]; other site 985006002076 putative Mg++ binding site [ion binding]; other site 985006002077 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 985006002078 nucleotide binding region [chemical binding]; other site 985006002079 ATP-binding site [chemical binding]; other site 985006002080 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 985006002081 HRDC domain; Region: HRDC; pfam00570 985006002082 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 985006002083 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 985006002084 Walker A/P-loop; other site 985006002085 ATP binding site [chemical binding]; other site 985006002086 Q-loop/lid; other site 985006002087 ABC transporter signature motif; other site 985006002088 Walker B; other site 985006002089 D-loop; other site 985006002090 H-loop/switch region; other site 985006002091 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 985006002092 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 985006002093 dimer interface [polypeptide binding]; other site 985006002094 conserved gate region; other site 985006002095 ABC-ATPase subunit interface; other site 985006002096 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 985006002097 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 985006002098 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 985006002099 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 985006002100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006002101 homodimer interface [polypeptide binding]; other site 985006002102 catalytic residue [active] 985006002103 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]; Region: COG4502 985006002104 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 985006002105 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 985006002106 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 985006002107 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 985006002108 putative substrate translocation pore; other site 985006002109 POT family; Region: PTR2; cl17359 985006002110 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 985006002111 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 985006002112 Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]; Region: NrdI; COG1780 985006002113 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 985006002114 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 985006002115 Class I ribonucleotide reductase; Region: RNR_I; cd01679 985006002116 active site 985006002117 dimer interface [polypeptide binding]; other site 985006002118 catalytic residues [active] 985006002119 effector binding site; other site 985006002120 R2 peptide binding site; other site 985006002121 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 985006002122 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 985006002123 dimer interface [polypeptide binding]; other site 985006002124 putative radical transfer pathway; other site 985006002125 diiron center [ion binding]; other site 985006002126 tyrosyl radical; other site 985006002127 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 985006002128 ABC-ATPase subunit interface; other site 985006002129 dimer interface [polypeptide binding]; other site 985006002130 putative PBP binding regions; other site 985006002131 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 985006002132 ABC-ATPase subunit interface; other site 985006002133 dimer interface [polypeptide binding]; other site 985006002134 putative PBP binding regions; other site 985006002135 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 985006002136 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985006002137 Walker A/P-loop; other site 985006002138 ATP binding site [chemical binding]; other site 985006002139 Q-loop/lid; other site 985006002140 ABC transporter signature motif; other site 985006002141 Walker B; other site 985006002142 D-loop; other site 985006002143 H-loop/switch region; other site 985006002144 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 985006002145 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 985006002146 putative ligand binding residues [chemical binding]; other site 985006002147 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 985006002148 CHY zinc finger; Region: zf-CHY; pfam05495 985006002149 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13906 985006002150 FAD binding domain; Region: FAD_binding_4; pfam01565 985006002151 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 985006002152 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 985006002153 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 985006002154 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 985006002155 peptidase T; Region: peptidase-T; TIGR01882 985006002156 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 985006002157 metal binding site [ion binding]; metal-binding site 985006002158 dimer interface [polypeptide binding]; other site 985006002159 Uncharacterized conserved protein [Function unknown]; Region: COG3610 985006002160 Uncharacterized conserved protein [Function unknown]; Region: COG2966 985006002161 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 985006002162 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 985006002163 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 985006002164 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 985006002165 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 985006002166 metal binding site [ion binding]; metal-binding site 985006002167 active site 985006002168 I-site; other site 985006002169 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 985006002170 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 985006002171 Mg++ binding site [ion binding]; other site 985006002172 putative catalytic motif [active] 985006002173 substrate binding site [chemical binding]; other site 985006002174 Uncharacterized conserved protein [Function unknown]; Region: COG1739 985006002175 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 985006002176 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 985006002177 EDD domain protein, DegV family; Region: DegV; TIGR00762 985006002178 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 985006002179 DEAD-like helicases superfamily; Region: DEXDc; smart00487 985006002180 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 985006002181 ATP binding site [chemical binding]; other site 985006002182 putative Mg++ binding site [ion binding]; other site 985006002183 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 985006002184 nucleotide binding region [chemical binding]; other site 985006002185 ATP-binding site [chemical binding]; other site 985006002186 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 985006002187 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985006002188 active site 985006002189 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 985006002190 30S subunit binding site; other site 985006002191 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 985006002192 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 985006002193 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 985006002194 nucleotide binding region [chemical binding]; other site 985006002195 ATP-binding site [chemical binding]; other site 985006002196 SEC-C motif; Region: SEC-C; pfam02810 985006002197 peptide chain release factor 2; Validated; Region: prfB; PRK00578 985006002198 This domain is found in peptide chain release factors; Region: PCRF; smart00937 985006002199 RF-1 domain; Region: RF-1; pfam00472 985006002200 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 985006002201 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985006002202 Surface antigen [General function prediction only]; Region: COG3942 985006002203 CHAP domain; Region: CHAP; pfam05257 985006002204 HD domain; Region: HD_3; cl17350 985006002205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CsbA; COG4897 985006002206 excinuclease ABC subunit B; Provisional; Region: PRK05298 985006002207 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 985006002208 ATP binding site [chemical binding]; other site 985006002209 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 985006002210 nucleotide binding region [chemical binding]; other site 985006002211 ATP-binding site [chemical binding]; other site 985006002212 Ultra-violet resistance protein B; Region: UvrB; pfam12344 985006002213 UvrB/uvrC motif; Region: UVR; pfam02151 985006002214 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 985006002215 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 985006002216 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 985006002217 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 985006002218 HPr kinase/phosphorylase; Provisional; Region: PRK05428 985006002219 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 985006002220 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 985006002221 Hpr binding site; other site 985006002222 active site 985006002223 homohexamer subunit interaction site [polypeptide binding]; other site 985006002224 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 985006002225 putative acyl transferase; Provisional; Region: PRK10191 985006002226 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 985006002227 trimer interface [polypeptide binding]; other site 985006002228 active site 985006002229 substrate binding site [chemical binding]; other site 985006002230 CoA binding site [chemical binding]; other site 985006002231 TPR repeat; Region: TPR_11; pfam13414 985006002232 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 985006002233 binding surface 985006002234 TPR motif; other site 985006002235 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 985006002236 TPR motif; other site 985006002237 binding surface 985006002238 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 985006002239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985006002240 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985006002241 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 985006002242 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 985006002243 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 985006002244 phosphate binding site [ion binding]; other site 985006002245 dimer interface [polypeptide binding]; other site 985006002246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 985006002247 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 985006002248 Clp protease; Region: CLP_protease; pfam00574 985006002249 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 985006002250 oligomer interface [polypeptide binding]; other site 985006002251 active site residues [active] 985006002252 malate dehydrogenase; Provisional; Region: PRK13529 985006002253 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985006002254 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 985006002255 NAD(P) binding site [chemical binding]; other site 985006002256 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 985006002257 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985006002258 NAD(P) binding site [chemical binding]; other site 985006002259 active site 985006002260 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 985006002261 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 985006002262 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 985006002263 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 985006002264 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 985006002265 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 985006002266 Phosphoglycerate kinase; Region: PGK; pfam00162 985006002267 substrate binding site [chemical binding]; other site 985006002268 hinge regions; other site 985006002269 ADP binding site [chemical binding]; other site 985006002270 catalytic site [active] 985006002271 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 985006002272 triosephosphate isomerase; Provisional; Region: PRK14565 985006002273 substrate binding site [chemical binding]; other site 985006002274 dimer interface [polypeptide binding]; other site 985006002275 catalytic triad [active] 985006002276 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 985006002277 phosphoglyceromutase; Provisional; Region: PRK05434 985006002278 enolase; Provisional; Region: eno; PRK00077 985006002279 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 985006002280 dimer interface [polypeptide binding]; other site 985006002281 metal binding site [ion binding]; metal-binding site 985006002282 substrate binding pocket [chemical binding]; other site 985006002283 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 985006002284 Esterase/lipase [General function prediction only]; Region: COG1647 985006002285 ribonuclease R; Region: RNase_R; TIGR02063 985006002286 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 985006002287 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 985006002288 RNB domain; Region: RNB; pfam00773 985006002289 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 985006002290 RNA binding site [nucleotide binding]; other site 985006002291 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 985006002292 SmpB-tmRNA interface; other site 985006002293 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006002294 Coenzyme A binding pocket [chemical binding]; other site 985006002295 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 985006002296 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985006002297 Staphylococcus aureus coagulase; Region: Coagulase; pfam08764 985006002298 Staphylococcal nuclease homologues; Region: SNc; smart00318 985006002299 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 985006002300 Catalytic site; other site 985006002301 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 985006002302 DNA-binding site [nucleotide binding]; DNA binding site 985006002303 RNA-binding motif; other site 985006002304 Uncharacterized distant relative of cell wall-associated hydrolases [Function unknown]; Region: COG3863 985006002305 Protein of unknown function (DUF1250); Region: DUF1250; pfam06855 985006002306 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 985006002307 catalytic core [active] 985006002308 Lysine efflux permease [General function prediction only]; Region: COG1279 985006002309 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 985006002310 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985006002311 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 985006002312 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 985006002313 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 985006002314 active site 985006002315 catalytic residue [active] 985006002316 dimer interface [polypeptide binding]; other site 985006002317 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 985006002318 putative FMN binding site [chemical binding]; other site 985006002319 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 985006002320 catalytic residues [active] 985006002321 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 985006002322 ArsC family; Region: ArsC; pfam03960 985006002323 putative ArsC-like catalytic residues; other site 985006002324 putative TRX-like catalytic residues [active] 985006002325 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 985006002326 lipoyl attachment site [posttranslational modification]; other site 985006002327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3878 985006002328 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 985006002329 putative active site [active] 985006002330 putative metal binding site [ion binding]; other site 985006002331 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 985006002332 catalytic residues [active] 985006002333 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 985006002334 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 985006002335 Walker A/P-loop; other site 985006002336 ATP binding site [chemical binding]; other site 985006002337 Q-loop/lid; other site 985006002338 ABC transporter signature motif; other site 985006002339 Walker B; other site 985006002340 D-loop; other site 985006002341 H-loop/switch region; other site 985006002342 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 985006002343 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 985006002344 dimer interface [polypeptide binding]; other site 985006002345 conserved gate region; other site 985006002346 ABC-ATPase subunit interface; other site 985006002347 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 985006002348 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 985006002349 putative pathogenicity island 985006002350 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 985006002351 Int/Topo IB signature motif; other site 985006002352 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985006002353 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 985006002354 non-specific DNA binding site [nucleotide binding]; other site 985006002355 salt bridge; other site 985006002356 sequence-specific DNA binding site [nucleotide binding]; other site 985006002357 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 985006002358 non-specific DNA binding site [nucleotide binding]; other site 985006002359 salt bridge; other site 985006002360 sequence-specific DNA binding site [nucleotide binding]; other site 985006002361 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 985006002362 Protein of unknown function (DUF1474); Region: DUF1474; pfam07342 985006002363 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 985006002364 polymerase nucleotide-binding site; other site 985006002365 DNA-binding residues [nucleotide binding]; DNA binding site 985006002366 nucleotide binding site [chemical binding]; other site 985006002367 primase nucleotide-binding site [nucleotide binding]; other site 985006002368 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 985006002369 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 985006002370 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 985006002371 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 985006002372 Protein of unknown function (DUF3125); Region: DUF3125; pfam11323 985006002373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 985006002374 Predicted membrane protein [Function unknown]; Region: COG2035 985006002375 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 985006002376 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 985006002377 Walker A/P-loop; other site 985006002378 ATP binding site [chemical binding]; other site 985006002379 Q-loop/lid; other site 985006002380 ABC transporter signature motif; other site 985006002381 Walker B; other site 985006002382 D-loop; other site 985006002383 H-loop/switch region; other site 985006002384 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 985006002385 FeS assembly protein SufD; Region: sufD; TIGR01981 985006002386 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 985006002387 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 985006002388 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985006002389 catalytic residue [active] 985006002390 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 985006002391 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 985006002392 trimerization site [polypeptide binding]; other site 985006002393 active site 985006002394 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 985006002395 FeS assembly protein SufB; Region: sufB; TIGR01980 985006002396 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 985006002397 active site 985006002398 DNA binding site [nucleotide binding] 985006002399 Int/Topo IB signature motif; other site 985006002400 prophage phiSa(LGA251) 985006002401 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; cl00322 985006002402 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 985006002403 non-specific DNA binding site [nucleotide binding]; other site 985006002404 salt bridge; other site 985006002405 sequence-specific DNA binding site [nucleotide binding]; other site 985006002406 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 985006002407 Catalytic site [active] 985006002408 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985006002409 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 985006002410 non-specific DNA binding site [nucleotide binding]; other site 985006002411 salt bridge; other site 985006002412 sequence-specific DNA binding site [nucleotide binding]; other site 985006002413 AntA/AntB antirepressor; Region: AntA; cl01430 985006002414 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3645 985006002415 Protein of unknown function (DUF1108); Region: DUF1108; pfam06531 985006002416 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 985006002417 ERF superfamily; Region: ERF; pfam04404 985006002418 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 985006002419 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 985006002420 dimer interface [polypeptide binding]; other site 985006002421 ssDNA binding site [nucleotide binding]; other site 985006002422 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985006002423 Protein of unknown function (DUF968); Region: DUF968; pfam06147 985006002424 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 985006002425 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 985006002426 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 985006002427 Walker A motif; other site 985006002428 ATP binding site [chemical binding]; other site 985006002429 Walker B motif; other site 985006002430 DNA binding loops [nucleotide binding] 985006002431 Protein of unknown function (DUF3269); Region: DUF3269; pfam11673 985006002432 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 985006002433 Protein of unknown function (DUF3113); Region: DUF3113; pfam11310 985006002434 PVL ORF-50-like family; Region: PVL_ORF50; pfam07768 985006002435 Phage Conserved Open Reading Frame 51; Region: Phage_Orf51; pfam06194 985006002436 Protein of unknown function (DUF1024); Region: DUF1024; pfam06260 985006002437 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 985006002438 trimer interface [polypeptide binding]; other site 985006002439 active site 985006002440 Protein of unknown function (DUF1381); Region: DUF1381; pfam07129 985006002441 Transcriptional activator RinB; Region: RinB; pfam06116 985006002442 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 985006002443 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 985006002444 Terminase small subunit; Region: Terminase_2; cl01513 985006002445 Phage terminase large subunit; Region: Terminase_3; cl12054 985006002446 Terminase-like family; Region: Terminase_6; pfam03237 985006002447 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 985006002448 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 985006002449 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 985006002450 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 985006002451 Phage capsid family; Region: Phage_capsid; pfam05065 985006002452 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 985006002453 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 985006002454 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 985006002455 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 985006002456 Phage protein; Region: DUF3647; pfam12363 985006002457 Phage-related protein [Function unknown]; Region: COG5412 985006002458 Phage tail protein; Region: Sipho_tail; pfam05709 985006002459 Prophage endopeptidase tail; Region: Prophage_tail; pfam06605 985006002460 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 985006002461 active site 985006002462 catalytic triad [active] 985006002463 oxyanion hole [active] 985006002464 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 985006002465 Protein of unknown function (DUF2977); Region: DUF2977; pfam11192 985006002466 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; pfam09693 985006002467 Protein of unknown function (DUF2951); Region: DUF2951; pfam11166 985006002468 CHAP domain; Region: CHAP; pfam05257 985006002469 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 985006002470 Lysozyme subfamily 2; Region: LYZ2; smart00047 985006002471 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 985006002472 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 985006002473 active site 985006002474 oxyanion hole [active] 985006002475 catalytic triad [active] 985006002476 Bacteriophage holin; Region: Phage_holin_1; pfam04531 985006002477 CHAP domain; Region: CHAP; pfam05257 985006002478 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 985006002479 amidase catalytic site [active] 985006002480 Zn binding residues [ion binding]; other site 985006002481 substrate binding site [chemical binding]; other site 985006002482 Bacterial SH3 domain; Region: SH3_5; pfam08460 985006002483 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 985006002484 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 985006002485 Domain of unknown function DUF21; Region: DUF21; pfam01595 985006002486 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 985006002487 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 985006002488 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 985006002489 FMN binding site [chemical binding]; other site 985006002490 substrate binding site [chemical binding]; other site 985006002491 putative catalytic residue [active] 985006002492 Uncharacterized conserved protein [Function unknown]; Region: COG1801 985006002493 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 985006002494 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 985006002495 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 985006002496 active site 985006002497 metal binding site [ion binding]; metal-binding site 985006002498 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985006002499 lipoyl synthase; Provisional; Region: PRK05481 985006002500 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 985006002501 FeS/SAM binding site; other site 985006002502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 985006002503 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 985006002504 Uncharacterized conserved protein [Function unknown]; Region: COG2445 985006002505 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 985006002506 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 985006002507 active site 985006002508 motif I; other site 985006002509 motif II; other site 985006002510 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 985006002511 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 985006002512 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 985006002513 dimerization interface [polypeptide binding]; other site 985006002514 ligand binding site [chemical binding]; other site 985006002515 NADP binding site [chemical binding]; other site 985006002516 catalytic site [active] 985006002517 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 985006002518 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 985006002519 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 985006002520 acyl-activating enzyme (AAE) consensus motif; other site 985006002521 AMP binding site [chemical binding]; other site 985006002522 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 985006002523 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 985006002524 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 985006002525 DltD N-terminal region; Region: DltD_N; pfam04915 985006002526 DltD central region; Region: DltD_M; pfam04918 985006002527 DltD C-terminal region; Region: DltD_C; pfam04914 985006002528 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 985006002529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4837 985006002530 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 985006002531 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985006002532 hypothetical protein; Provisional; Region: PRK13669 985006002533 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 985006002534 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 985006002535 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985006002536 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 985006002537 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 985006002538 interface (dimer of trimers) [polypeptide binding]; other site 985006002539 Substrate-binding/catalytic site; other site 985006002540 Zn-binding sites [ion binding]; other site 985006002541 Predicted permease [General function prediction only]; Region: COG2056 985006002542 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 985006002543 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 985006002544 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 985006002545 CoenzymeA binding site [chemical binding]; other site 985006002546 subunit interaction site [polypeptide binding]; other site 985006002547 PHB binding site; other site 985006002548 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985006002549 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 985006002550 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12587 985006002551 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 985006002552 Monovalent Cation (K+ or Na+):Proton Antiporter-3 (CPA3) subfamily; Region: 2a6301s05; TIGR00942 985006002553 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 985006002554 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 985006002555 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 985006002556 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 985006002557 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 985006002558 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 985006002559 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 985006002560 Kinase associated protein B; Region: KapB; pfam08810 985006002561 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; cl00197 985006002562 active site 985006002563 general stress protein 13; Validated; Region: PRK08059 985006002564 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 985006002565 RNA binding site [nucleotide binding]; other site 985006002566 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985006002567 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 985006002568 putative active site [active] 985006002569 putative FMN binding site [chemical binding]; other site 985006002570 putative substrate binding site [chemical binding]; other site 985006002571 putative catalytic residue [active] 985006002572 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 985006002573 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 985006002574 inhibitor-cofactor binding pocket; inhibition site 985006002575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006002576 catalytic residue [active] 985006002577 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 985006002578 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 985006002579 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 985006002580 NAD(P) binding site [chemical binding]; other site 985006002581 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 985006002582 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 985006002583 active site 985006002584 catalytic site [active] 985006002585 metal binding site [ion binding]; metal-binding site 985006002586 argininosuccinate lyase; Provisional; Region: PRK00855 985006002587 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 985006002588 active sites [active] 985006002589 tetramer interface [polypeptide binding]; other site 985006002590 argininosuccinate synthase; Provisional; Region: PRK13820 985006002591 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 985006002592 ANP binding site [chemical binding]; other site 985006002593 Substrate Binding Site II [chemical binding]; other site 985006002594 Substrate Binding Site I [chemical binding]; other site 985006002595 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 985006002596 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 985006002597 active site 985006002598 dimer interface [polypeptide binding]; other site 985006002599 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 985006002600 dimer interface [polypeptide binding]; other site 985006002601 active site 985006002602 Uncharacterized conserved protein [Function unknown]; Region: COG0398 985006002603 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 985006002604 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 985006002605 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 985006002606 Catalytic site [active] 985006002607 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 985006002608 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 985006002609 Catalytic site [active] 985006002610 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 985006002611 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 985006002612 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 985006002613 Part of AAA domain; Region: AAA_19; pfam13245 985006002614 Family description; Region: UvrD_C_2; pfam13538 985006002615 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 985006002616 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 985006002617 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 985006002618 hypothetical protein; Provisional; Region: PRK13673 985006002619 coenzyme A disulfide reductase; Provisional; Region: PRK13512 985006002620 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985006002621 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985006002622 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985006002623 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 985006002624 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 985006002625 active site 985006002626 motif I; other site 985006002627 motif II; other site 985006002628 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 985006002629 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 985006002630 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 985006002631 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 985006002632 catalytic triad [active] 985006002633 catalytic triad [active] 985006002634 oxyanion hole [active] 985006002635 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 985006002636 Clp amino terminal domain; Region: Clp_N; pfam02861 985006002637 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 985006002638 Walker A motif; other site 985006002639 ATP binding site [chemical binding]; other site 985006002640 Walker B motif; other site 985006002641 arginine finger; other site 985006002642 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 985006002643 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 985006002644 Walker A motif; other site 985006002645 ATP binding site [chemical binding]; other site 985006002646 Walker B motif; other site 985006002647 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 985006002648 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985006002649 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985006002650 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 985006002651 dimerization interface [polypeptide binding]; other site 985006002653 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 985006002654 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 985006002655 substrate binding site [chemical binding]; other site 985006002656 MAP domain; Region: MAP; pfam03642 985006002657 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 985006002658 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 985006002659 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 985006002660 dimer interface [polypeptide binding]; other site 985006002661 active site 985006002662 CoA binding pocket [chemical binding]; other site 985006002663 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 985006002664 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 985006002665 dimer interface [polypeptide binding]; other site 985006002666 active site 985006002667 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985006002668 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 985006002669 dimer interface [polypeptide binding]; other site 985006002670 conserved gate region; other site 985006002671 putative PBP binding loops; other site 985006002672 ABC-ATPase subunit interface; other site 985006002673 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 985006002674 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 985006002675 dimer interface [polypeptide binding]; other site 985006002676 conserved gate region; other site 985006002677 putative PBP binding loops; other site 985006002678 ABC-ATPase subunit interface; other site 985006002679 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985006002680 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985006002681 Walker A/P-loop; other site 985006002682 ATP binding site [chemical binding]; other site 985006002683 Q-loop/lid; other site 985006002684 ABC transporter signature motif; other site 985006002685 Walker B; other site 985006002686 D-loop; other site 985006002687 H-loop/switch region; other site 985006002688 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985006002689 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985006002690 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985006002691 Walker A/P-loop; other site 985006002692 ATP binding site [chemical binding]; other site 985006002693 Q-loop/lid; other site 985006002694 ABC transporter signature motif; other site 985006002695 Walker B; other site 985006002696 D-loop; other site 985006002697 H-loop/switch region; other site 985006002698 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985006002699 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 985006002700 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 985006002701 peptide binding site [polypeptide binding]; other site 985006002702 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985006002703 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 985006002704 peptide binding site [polypeptide binding]; other site 985006002705 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985006002706 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985006002707 Walker A/P-loop; other site 985006002708 ATP binding site [chemical binding]; other site 985006002709 Q-loop/lid; other site 985006002710 ABC transporter signature motif; other site 985006002711 Walker B; other site 985006002712 D-loop; other site 985006002713 H-loop/switch region; other site 985006002714 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985006002715 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 985006002716 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985006002717 Walker A/P-loop; other site 985006002718 ATP binding site [chemical binding]; other site 985006002719 Q-loop/lid; other site 985006002720 ABC transporter signature motif; other site 985006002721 Walker B; other site 985006002722 D-loop; other site 985006002723 H-loop/switch region; other site 985006002724 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985006002725 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985006002726 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 985006002727 dimer interface [polypeptide binding]; other site 985006002728 conserved gate region; other site 985006002729 putative PBP binding loops; other site 985006002730 ABC-ATPase subunit interface; other site 985006002731 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 985006002732 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 985006002733 dimer interface [polypeptide binding]; other site 985006002734 conserved gate region; other site 985006002735 putative PBP binding loops; other site 985006002736 ABC-ATPase subunit interface; other site 985006002737 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 985006002738 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 985006002739 active site 985006002740 HIGH motif; other site 985006002741 dimer interface [polypeptide binding]; other site 985006002742 KMSKS motif; other site 985006002743 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 985006002744 ArsC family; Region: ArsC; pfam03960 985006002745 putative catalytic residues [active] 985006002746 thiol/disulfide switch; other site 985006002747 adaptor protein; Provisional; Region: PRK02315 985006002748 Competence protein CoiA-like family; Region: CoiA; cl11541 985006002749 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 985006002750 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 985006002751 active site 985006002752 Zn binding site [ion binding]; other site 985006002753 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 985006002754 Thioredoxin; Region: Thioredoxin_5; pfam13743 985006002755 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 985006002756 apolar tunnel; other site 985006002757 heme binding site [chemical binding]; other site 985006002758 dimerization interface [polypeptide binding]; other site 985006002759 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 985006002760 putative active site [active] 985006002761 putative metal binding residues [ion binding]; other site 985006002762 signature motif; other site 985006002763 putative triphosphate binding site [ion binding]; other site 985006002764 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 985006002765 synthetase active site [active] 985006002766 NTP binding site [chemical binding]; other site 985006002767 metal binding site [ion binding]; metal-binding site 985006002768 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 985006002769 ATP-NAD kinase; Region: NAD_kinase; pfam01513 985006002770 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 985006002771 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 985006002772 active site 985006002773 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 985006002774 MgtE intracellular N domain; Region: MgtE_N; smart00924 985006002775 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 985006002776 Divalent cation transporter; Region: MgtE; pfam01769 985006002777 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 985006002778 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 985006002779 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 985006002780 TrkA-N domain; Region: TrkA_N; pfam02254 985006002781 TrkA-C domain; Region: TrkA_C; pfam02080 985006002782 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 985006002783 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 985006002784 NAD binding site [chemical binding]; other site 985006002785 homotetramer interface [polypeptide binding]; other site 985006002786 homodimer interface [polypeptide binding]; other site 985006002787 substrate binding site [chemical binding]; other site 985006002788 active site 985006002789 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 985006002790 Domain of unknown function DUF20; Region: UPF0118; pfam01594 985006002791 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 985006002792 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 985006002793 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 985006002794 Putative esterase; Region: Esterase; pfam00756 985006002795 hypothetical protein; Provisional; Region: PRK13679 985006002796 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 985006002797 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985006002798 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 985006002799 putative substrate translocation pore; other site 985006002800 diacylglycerol glucosyltransferase; Provisional; Region: PRK13608 985006002801 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 985006002802 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 985006002803 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 985006002804 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 985006002805 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985006002806 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985006002807 YueH-like protein; Region: YueH; pfam14166 985006002808 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 985006002809 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 985006002810 G1 box; other site 985006002811 putative GEF interaction site [polypeptide binding]; other site 985006002812 GTP/Mg2+ binding site [chemical binding]; other site 985006002813 Switch I region; other site 985006002814 G2 box; other site 985006002815 G3 box; other site 985006002816 Switch II region; other site 985006002817 G4 box; other site 985006002818 G5 box; other site 985006002819 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 985006002820 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 985006002821 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 985006002822 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 985006002823 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 985006002824 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 985006002825 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 985006002826 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 985006002827 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 985006002828 active site 985006002829 metal binding site [ion binding]; metal-binding site 985006002830 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985006002831 Genetic competence transcription factor [Transcription]; Region: ComK; COG4903 985006002832 IDEAL domain; Region: IDEAL; pfam08858 985006002833 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 985006002834 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 985006002835 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 985006002836 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4873 985006002837 CAAX protease self-immunity; Region: Abi; pfam02517 985006002838 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; pfam09683 985006002839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 985006002840 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 985006002841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 985006002842 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 985006002843 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 985006002844 Walker A/P-loop; other site 985006002845 ATP binding site [chemical binding]; other site 985006002846 Q-loop/lid; other site 985006002847 ABC transporter signature motif; other site 985006002848 Walker B; other site 985006002849 D-loop; other site 985006002850 H-loop/switch region; other site 985006002852 Predicted membrane protein [Function unknown]; Region: COG2259 985006002853 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 985006002854 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 985006002855 siderophore binding site; other site 985006002856 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 985006002857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006002858 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985006002859 Coenzyme A binding pocket [chemical binding]; other site 985006002860 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 985006002861 UbiA prenyltransferase family; Region: UbiA; pfam01040 985006002862 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 985006002863 isochorismate synthases; Region: isochor_syn; TIGR00543 985006002864 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 985006002865 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 985006002866 dimer interface [polypeptide binding]; other site 985006002867 tetramer interface [polypeptide binding]; other site 985006002868 PYR/PP interface [polypeptide binding]; other site 985006002869 TPP binding site [chemical binding]; other site 985006002870 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 985006002871 TPP-binding site; other site 985006002872 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 985006002873 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 985006002874 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 985006002875 substrate binding site [chemical binding]; other site 985006002876 oxyanion hole (OAH) forming residues; other site 985006002877 trimer interface [polypeptide binding]; other site 985006002878 Staphostatin B; Region: Staphostatin_B; pfam09023 985006002879 Staphopain peptidase C47; Region: Peptidase_C47; pfam05543 985006002880 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 985006002881 aminotransferase A; Validated; Region: PRK07683 985006002882 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 985006002883 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006002884 homodimer interface [polypeptide binding]; other site 985006002885 catalytic residue [active] 985006002886 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 985006002887 Acyltransferase family; Region: Acyl_transf_3; pfam01757 985006002888 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985006002889 MarR family; Region: MarR; pfam01047 985006002890 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 985006002891 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 985006002892 amidase catalytic site [active] 985006002893 Zn binding residues [ion binding]; other site 985006002894 substrate binding site [chemical binding]; other site 985006002895 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 985006002896 Lysozyme subfamily 2; Region: LYZ2; smart00047 985006002897 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006002898 Coenzyme A binding pocket [chemical binding]; other site 985006002899 Protein of unknown function (DUF2538); Region: DUF2538; pfam10804 985006002900 Transcriptional regulator [Transcription]; Region: LytR; COG1316 985006002901 Beta-lactamase; Region: Beta-lactamase; pfam00144 985006002902 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 985006002903 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 985006002904 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 985006002905 Subunit I/III interface [polypeptide binding]; other site 985006002906 Subunit III/IV interface [polypeptide binding]; other site 985006002907 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 985006002908 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 985006002909 D-pathway; other site 985006002910 Putative ubiquinol binding site [chemical binding]; other site 985006002911 Low-spin heme (heme b) binding site [chemical binding]; other site 985006002912 Putative water exit pathway; other site 985006002913 Binuclear center (heme o3/CuB) [ion binding]; other site 985006002914 K-pathway; other site 985006002915 Putative proton exit pathway; other site 985006002916 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 985006002917 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 985006002918 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 985006002919 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 985006002920 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14175 985006002921 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 985006002922 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 985006002923 homodimer interface [polypeptide binding]; other site 985006002924 NADP binding site [chemical binding]; other site 985006002925 substrate binding site [chemical binding]; other site 985006002926 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 985006002927 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 985006002928 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 985006002929 NAD binding site [chemical binding]; other site 985006002930 ATP-grasp domain; Region: ATP-grasp; pfam02222 985006002931 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 985006002932 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 985006002933 ATP binding site [chemical binding]; other site 985006002934 active site 985006002935 substrate binding site [chemical binding]; other site 985006002936 Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component [Nucleotide transport and metabolism]; Region: PurS; COG1828 985006002937 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 985006002938 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 985006002939 putative active site [active] 985006002940 catalytic triad [active] 985006002941 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 985006002942 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 985006002943 dimerization interface [polypeptide binding]; other site 985006002944 ATP binding site [chemical binding]; other site 985006002945 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 985006002946 dimerization interface [polypeptide binding]; other site 985006002947 ATP binding site [chemical binding]; other site 985006002948 amidophosphoribosyltransferase; Provisional; Region: PRK07272 985006002949 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 985006002950 active site 985006002951 tetramer interface [polypeptide binding]; other site 985006002952 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985006002953 active site 985006002954 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 985006002955 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 985006002956 dimerization interface [polypeptide binding]; other site 985006002957 putative ATP binding site [chemical binding]; other site 985006002958 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 985006002959 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 985006002960 active site 985006002961 substrate binding site [chemical binding]; other site 985006002962 cosubstrate binding site; other site 985006002963 catalytic site [active] 985006002964 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 985006002965 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 985006002966 purine monophosphate binding site [chemical binding]; other site 985006002967 dimer interface [polypeptide binding]; other site 985006002968 putative catalytic residues [active] 985006002969 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 985006002970 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 985006002971 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 985006002972 phosphoribosylamine--glycine ligase; Provisional; Region: PRK13790 985006002973 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 985006002974 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 985006002975 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 985006002976 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 985006002977 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985006002978 Walker A/P-loop; other site 985006002979 ATP binding site [chemical binding]; other site 985006002980 Q-loop/lid; other site 985006002981 ABC transporter signature motif; other site 985006002982 Walker B; other site 985006002983 D-loop; other site 985006002984 H-loop/switch region; other site 985006002985 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 985006002986 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985006002987 Walker A/P-loop; other site 985006002988 ATP binding site [chemical binding]; other site 985006002989 Q-loop/lid; other site 985006002990 ABC transporter signature motif; other site 985006002991 Walker B; other site 985006002992 D-loop; other site 985006002993 H-loop/switch region; other site 985006002994 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 985006002995 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 985006002996 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 985006002997 putative RNA binding site [nucleotide binding]; other site 985006002998 Methyltransferase domain; Region: Methyltransf_26; pfam13659 985006002999 Domain of unknown function (DUF697); Region: DUF697; cl12064 985006003000 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 985006003001 dimerization domain swap beta strand [polypeptide binding]; other site 985006003002 regulatory protein interface [polypeptide binding]; other site 985006003003 active site 985006003004 regulatory phosphorylation site [posttranslational modification]; other site 985006003005 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 985006003006 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 985006003007 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 985006003008 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 985006003009 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 985006003010 catalytic residues [active] 985006003011 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 985006003012 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 985006003013 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 985006003014 TrkA-N domain; Region: TrkA_N; pfam02254 985006003015 TrkA-C domain; Region: TrkA_C; pfam02080 985006003016 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 985006003017 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 985006003018 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 985006003019 hypothetical protein; Provisional; Region: PRK13667 985006003020 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 985006003021 active site 985006003022 catalytic residues [active] 985006003023 metal binding site [ion binding]; metal-binding site 985006003024 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 985006003025 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 985006003026 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 985006003027 TPP-binding site [chemical binding]; other site 985006003028 tetramer interface [polypeptide binding]; other site 985006003029 heterodimer interface [polypeptide binding]; other site 985006003030 phosphorylation loop region [posttranslational modification] 985006003031 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 985006003032 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 985006003033 alpha subunit interface [polypeptide binding]; other site 985006003034 TPP binding site [chemical binding]; other site 985006003035 heterodimer interface [polypeptide binding]; other site 985006003036 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985006003037 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 985006003038 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 985006003039 E3 interaction surface; other site 985006003040 lipoyl attachment site [posttranslational modification]; other site 985006003041 e3 binding domain; Region: E3_binding; pfam02817 985006003042 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 985006003043 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 985006003044 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 985006003045 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985006003046 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985006003047 hypothetical protein; Provisional; Region: PRK04387 985006003048 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985006003049 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 985006003050 non-specific DNA binding site [nucleotide binding]; other site 985006003051 salt bridge; other site 985006003052 sequence-specific DNA binding site [nucleotide binding]; other site 985006003053 Cupin domain; Region: Cupin_2; pfam07883 985006003054 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 985006003055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006003056 Walker A/P-loop; other site 985006003057 ATP binding site [chemical binding]; other site 985006003058 Q-loop/lid; other site 985006003059 ABC transporter signature motif; other site 985006003060 Walker B; other site 985006003061 D-loop; other site 985006003062 H-loop/switch region; other site 985006003063 TOBE domain; Region: TOBE_2; pfam08402 985006003064 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 985006003065 putative PBP binding loops; other site 985006003066 dimer interface [polypeptide binding]; other site 985006003067 ABC-ATPase subunit interface; other site 985006003068 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985006003069 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 985006003070 dimer interface [polypeptide binding]; other site 985006003071 conserved gate region; other site 985006003072 putative PBP binding loops; other site 985006003073 ABC-ATPase subunit interface; other site 985006003074 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 985006003075 Toxin Fst, type I toxin-antitoxin system; Region: Fst_toxin; pfam13955 985006003076 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985006003077 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 985006003078 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 985006003079 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 985006003080 manganese transport protein MntH; Reviewed; Region: PRK00701 985006003081 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 985006003082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 985006003083 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 985006003084 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 985006003085 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 985006003086 active site 985006003087 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 985006003088 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 985006003089 G1 box; other site 985006003090 putative GEF interaction site [polypeptide binding]; other site 985006003091 GTP/Mg2+ binding site [chemical binding]; other site 985006003092 Switch I region; other site 985006003093 G2 box; other site 985006003094 G3 box; other site 985006003095 Switch II region; other site 985006003096 G4 box; other site 985006003097 G5 box; other site 985006003098 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 985006003099 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 985006003100 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; pfam09963 985006003101 hypothetical protein; Provisional; Region: PRK13666 985006003102 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 985006003103 pyruvate carboxylase; Reviewed; Region: PRK12999 985006003104 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985006003105 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 985006003106 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 985006003107 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 985006003108 active site 985006003109 catalytic residues [active] 985006003110 metal binding site [ion binding]; metal-binding site 985006003111 homodimer binding site [polypeptide binding]; other site 985006003112 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 985006003113 carboxyltransferase (CT) interaction site; other site 985006003114 biotinylation site [posttranslational modification]; other site 985006003115 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 985006003116 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 985006003117 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 985006003118 UbiA prenyltransferase family; Region: UbiA; pfam01040 985006003119 Predicted membrane protein [Function unknown]; Region: COG2322 985006003120 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 985006003121 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 985006003122 Regulatory protein involved in competence development and sporulation [Replication, recombination and repair; Signal transduction mechanisms]; Region: COG3679 985006003123 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 985006003124 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 985006003125 putative active site [active] 985006003126 catalytic site [active] 985006003127 putative metal binding site [ion binding]; other site 985006003128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4471 985006003129 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 985006003130 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 985006003131 S-adenosylmethionine binding site [chemical binding]; other site 985006003132 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 985006003133 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 985006003134 active site 985006003135 (T/H)XGH motif; other site 985006003136 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 985006003137 hypothetical protein; Provisional; Region: PRK13670 985006003138 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 985006003139 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 985006003140 heme uptake protein IsdB; Region: IsdB; TIGR03657 985006003141 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 985006003142 NEAr Transporter domain; Region: NEAT; smart00725 985006003143 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985006003144 heme-binding site [chemical binding]; other site 985006003145 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 985006003146 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 985006003147 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985006003148 heme-binding site [chemical binding]; other site 985006003149 heme uptake protein IsdC; Region: IsdC; TIGR03656 985006003150 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985006003151 heme-binding site [chemical binding]; other site 985006003152 sortase B signal domain, NPQTN class; Region: srtB_sig_NPQTN; TIGR03068 985006003153 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 985006003154 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 985006003155 intersubunit interface [polypeptide binding]; other site 985006003156 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985006003157 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 985006003158 ABC-ATPase subunit interface; other site 985006003159 dimer interface [polypeptide binding]; other site 985006003160 putative PBP binding regions; other site 985006003161 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 985006003162 active site 985006003163 catalytic site [active] 985006003164 heme-degrading monooxygenase IsdG; Provisional; Region: PRK13312 985006003165 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 985006003166 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 985006003167 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 985006003168 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 985006003169 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 985006003170 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 985006003171 dimer interface [polypeptide binding]; other site 985006003172 motif 1; other site 985006003173 active site 985006003174 motif 2; other site 985006003175 motif 3; other site 985006003176 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 985006003177 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 985006003178 putative tRNA-binding site [nucleotide binding]; other site 985006003179 B3/4 domain; Region: B3_4; pfam03483 985006003180 tRNA synthetase B5 domain; Region: B5; smart00874 985006003181 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 985006003182 dimer interface [polypeptide binding]; other site 985006003183 motif 1; other site 985006003184 motif 3; other site 985006003185 motif 2; other site 985006003186 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 985006003187 ribonuclease HIII; Provisional; Region: PRK00996 985006003188 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 985006003189 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 985006003190 RNA/DNA hybrid binding site [nucleotide binding]; other site 985006003191 active site 985006003192 Cell division protein ZapA; Region: ZapA; cl01146 985006003193 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 985006003194 Colicin V production protein; Region: Colicin_V; pfam02674 985006003195 hypothetical protein; Provisional; Region: PRK08609 985006003196 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 985006003197 active site 985006003198 primer binding site [nucleotide binding]; other site 985006003199 NTP binding site [chemical binding]; other site 985006003200 metal binding triad [ion binding]; metal-binding site 985006003201 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 985006003202 active site 985006003203 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 985006003204 MutS domain III; Region: MutS_III; pfam05192 985006003205 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 985006003206 Walker A/P-loop; other site 985006003207 ATP binding site [chemical binding]; other site 985006003208 Q-loop/lid; other site 985006003209 ABC transporter signature motif; other site 985006003210 Walker B; other site 985006003211 D-loop; other site 985006003212 H-loop/switch region; other site 985006003213 Smr domain; Region: Smr; pfam01713 985006003214 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 985006003215 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 985006003216 catalytic residues [active] 985006003217 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 985006003218 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 985006003219 GIY-YIG motif/motif A; other site 985006003220 active site 985006003221 catalytic site [active] 985006003222 putative DNA binding site [nucleotide binding]; other site 985006003223 metal binding site [ion binding]; metal-binding site 985006003224 UvrB/uvrC motif; Region: UVR; pfam02151 985006003225 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 985006003226 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 985006003227 putative Iron-sulfur protein interface [polypeptide binding]; other site 985006003228 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 985006003229 proximal heme binding site [chemical binding]; other site 985006003230 distal heme binding site [chemical binding]; other site 985006003231 putative dimer interface [polypeptide binding]; other site 985006003232 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 985006003233 L-aspartate oxidase; Provisional; Region: PRK06175 985006003234 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 985006003235 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 985006003236 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 985006003237 glutamate racemase; Provisional; Region: PRK00865 985006003238 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 985006003239 active site 985006003240 dimerization interface [polypeptide binding]; other site 985006003241 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 985006003242 active site 985006003243 metal binding site [ion binding]; metal-binding site 985006003244 homotetramer interface [polypeptide binding]; other site 985006003245 Extracellular fibrinogen binding protein C terminal; Region: efb-c; pfam12199 985006003246 formyl peptide receptor-like 1 inhibitory protein; Reviewed; Region: PRK13033 985006003247 Extracellular fibrinogen binding protein C terminal; Region: efb-c; pfam12199 985006003248 Staphylococcal complement inhibitor SCIN; Region: CompInhib_SCIN; pfam11546 985006003250 superantigen-like protein; Reviewed; Region: PRK13350 985006003251 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006003252 superantigen-like protein; Reviewed; Region: PRK13349 985006003253 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006003254 superantigen-like protein; Reviewed; Region: PRK13043 985006003255 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006003256 ornithine carbamoyltransferase; Provisional; Region: PRK04284 985006003257 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 985006003258 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 985006003259 carbamate kinase; Reviewed; Region: PRK12686 985006003260 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 985006003261 putative substrate binding site [chemical binding]; other site 985006003262 nucleotide binding site [chemical binding]; other site 985006003263 nucleotide binding site [chemical binding]; other site 985006003264 homodimer interface [polypeptide binding]; other site 985006003265 Predicted membrane protein [Function unknown]; Region: COG1288 985006003266 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 985006003267 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 985006003268 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 985006003269 gating phenylalanine in ion channel; other site 985006003270 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 985006003271 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 985006003272 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 985006003273 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 985006003274 motif II; other site 985006003275 hypothetical protein; Provisional; Region: PRK13688 985006003276 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 985006003277 Coenzyme A binding pocket [chemical binding]; other site 985006003278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 985006003279 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 985006003280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 985006003281 MraZ protein; Region: MraZ; pfam02381 985006003282 MraZ protein; Region: MraZ; pfam02381 985006003283 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 985006003284 MraW methylase family; Region: Methyltransf_5; pfam01795 985006003285 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 985006003286 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 985006003287 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 985006003288 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 985006003289 PASTA domain of PBP2x-like proteins, first 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_1; cd06576 985006003290 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 985006003291 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 985006003292 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 985006003293 Mg++ binding site [ion binding]; other site 985006003294 putative catalytic motif [active] 985006003295 putative substrate binding site [chemical binding]; other site 985006003296 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 985006003297 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 985006003298 NAD binding site [chemical binding]; other site 985006003299 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985006003300 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985006003301 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 985006003302 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 985006003303 Cell division protein FtsQ; Region: FtsQ; pfam03799 985006003304 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 985006003305 Cell division protein FtsA; Region: FtsA; smart00842 985006003306 Cell division protein FtsA; Region: FtsA; pfam14450 985006003307 cell division protein FtsZ; Validated; Region: PRK09330 985006003308 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 985006003309 nucleotide binding site [chemical binding]; other site 985006003310 SulA interaction site; other site 985006003311 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 985006003312 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 985006003313 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 985006003314 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985006003315 catalytic residue [active] 985006003316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 985006003317 YGGT family; Region: YGGT; pfam02325 985006003318 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 985006003319 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 985006003320 RNA binding surface [nucleotide binding]; other site 985006003321 DivIVA protein; Region: DivIVA; pfam05103 985006003322 DivIVA domain; Region: DivI1A_domain; TIGR03544 985006003323 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 985006003324 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 985006003325 HIGH motif; other site 985006003326 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 985006003327 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 985006003328 active site 985006003329 KMSKS motif; other site 985006003330 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 985006003331 tRNA binding surface [nucleotide binding]; other site 985006003332 anticodon binding site; other site 985006003333 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 985006003334 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 985006003335 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 985006003336 active site 985006003337 Probable gene remnant 985006003338 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 985006003339 lipoprotein signal peptidase; Provisional; Region: PRK14787 985006003340 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 985006003341 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 985006003342 RNA binding surface [nucleotide binding]; other site 985006003343 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 985006003344 active site 985006003345 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 985006003346 bifunctional pyrimidine regulatory protein PyrR uracil phosphoribosyltransferase; Provisional; Region: PRK05205 985006003347 uracil transporter; Provisional; Region: PRK10720 985006003348 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 985006003349 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 985006003350 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 985006003351 dihydroorotase; Validated; Region: pyrC; PRK09357 985006003352 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 985006003353 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 985006003354 active site 985006003355 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 985006003356 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 985006003357 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 985006003358 catalytic site [active] 985006003359 subunit interface [polypeptide binding]; other site 985006003360 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 985006003361 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985006003362 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 985006003363 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 985006003364 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985006003365 ATP-grasp domain; Region: ATP-grasp_4; cl17255 985006003366 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 985006003367 IMP binding site; other site 985006003368 dimer interface [polypeptide binding]; other site 985006003369 interdomain contacts; other site 985006003370 partial ornithine binding site; other site 985006003371 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 985006003372 active site 985006003373 dimer interface [polypeptide binding]; other site 985006003374 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985006003375 active site 985006003376 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 985006003377 dimer interface [polypeptide binding]; other site 985006003378 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 985006003379 Domain of unknown function (DUF814); Region: DUF814; pfam05670 985006003380 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 985006003381 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 985006003382 catalytic site [active] 985006003383 G-X2-G-X-G-K; other site 985006003384 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 985006003385 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 985006003386 Flavoprotein; Region: Flavoprotein; pfam02441 985006003387 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 985006003388 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 985006003389 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 985006003390 ATP binding site [chemical binding]; other site 985006003391 putative Mg++ binding site [ion binding]; other site 985006003392 helicase superfamily c-terminal domain; Region: HELICc; smart00490 985006003393 nucleotide binding region [chemical binding]; other site 985006003394 ATP-binding site [chemical binding]; other site 985006003395 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 985006003396 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 985006003397 active site 985006003398 catalytic residues [active] 985006003399 metal binding site [ion binding]; metal-binding site 985006003400 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 985006003401 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 985006003402 putative active site [active] 985006003403 substrate binding site [chemical binding]; other site 985006003404 putative cosubstrate binding site; other site 985006003405 catalytic site [active] 985006003406 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 985006003407 substrate binding site [chemical binding]; other site 985006003408 16S rRNA methyltransferase B; Provisional; Region: PRK14902 985006003409 NusB family; Region: NusB; pfam01029 985006003410 putative RNA binding site [nucleotide binding]; other site 985006003411 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 985006003412 S-adenosylmethionine binding site [chemical binding]; other site 985006003413 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 985006003414 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 985006003415 FeS/SAM binding site; other site 985006003416 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 985006003417 Protein phosphatase 2C; Region: PP2C; pfam00481 985006003418 active site 985006003419 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 985006003420 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 985006003421 active site 985006003422 ATP binding site [chemical binding]; other site 985006003423 substrate binding site [chemical binding]; other site 985006003424 activation loop (A-loop); other site 985006003425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 985006003426 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 985006003427 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 985006003428 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 985006003429 Predicted GTPases [General function prediction only]; Region: COG1162 985006003430 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 985006003431 RNA binding site [nucleotide binding]; other site 985006003432 homodimer interface [polypeptide binding]; other site 985006003433 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 985006003434 GTPase/Zn-binding domain interface [polypeptide binding]; other site 985006003435 GTP/Mg2+ binding site [chemical binding]; other site 985006003436 G4 box; other site 985006003437 G5 box; other site 985006003438 G1 box; other site 985006003439 Switch I region; other site 985006003440 G2 box; other site 985006003441 G3 box; other site 985006003442 Switch II region; other site 985006003443 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 985006003444 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 985006003445 substrate binding site [chemical binding]; other site 985006003446 hexamer interface [polypeptide binding]; other site 985006003447 metal binding site [ion binding]; metal-binding site 985006003448 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 985006003449 Thiamine pyrophosphokinase; Region: TPK; cd07995 985006003450 active site 985006003451 dimerization interface [polypeptide binding]; other site 985006003452 thiamine binding site [chemical binding]; other site 985006003453 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 985006003454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 985006003455 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 985006003456 DAK2 domain; Region: Dak2; pfam02734 985006003457 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 985006003458 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 985006003459 generic binding surface II; other site 985006003460 ssDNA binding site; other site 985006003461 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 985006003462 ATP binding site [chemical binding]; other site 985006003463 putative Mg++ binding site [ion binding]; other site 985006003464 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 985006003465 nucleotide binding region [chemical binding]; other site 985006003466 ATP-binding site [chemical binding]; other site 985006003467 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 985006003468 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 985006003469 active site 2 [active] 985006003470 active site 1 [active] 985006003471 putative phosphate acyltransferase; Provisional; Region: PRK05331 985006003472 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 985006003473 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 985006003474 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 985006003475 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 985006003476 NAD(P) binding site [chemical binding]; other site 985006003477 homotetramer interface [polypeptide binding]; other site 985006003478 homodimer interface [polypeptide binding]; other site 985006003479 active site 985006003480 acyl carrier protein; Provisional; Region: acpP; PRK00982 985006003481 ribonuclease III; Reviewed; Region: rnc; PRK00102 985006003482 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 985006003483 dimerization interface [polypeptide binding]; other site 985006003484 active site 985006003485 metal binding site [ion binding]; metal-binding site 985006003486 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 985006003487 dsRNA binding site [nucleotide binding]; other site 985006003488 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 985006003489 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 985006003490 Walker A/P-loop; other site 985006003491 ATP binding site [chemical binding]; other site 985006003492 Q-loop/lid; other site 985006003493 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 985006003494 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 985006003495 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 985006003496 ABC transporter signature motif; other site 985006003497 Walker B; other site 985006003498 D-loop; other site 985006003499 H-loop/switch region; other site 985006003500 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 985006003501 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 985006003502 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 985006003503 P loop; other site 985006003504 GTP binding site [chemical binding]; other site 985006003505 putative DNA-binding protein; Validated; Region: PRK00118 985006003506 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 985006003507 signal recognition particle protein; Provisional; Region: PRK10867 985006003508 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 985006003509 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 985006003510 P loop; other site 985006003511 GTP binding site [chemical binding]; other site 985006003512 Signal peptide binding domain; Region: SRP_SPB; pfam02978 985006003513 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 985006003514 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 985006003515 RimM N-terminal domain; Region: RimM; pfam01782 985006003516 PRC-barrel domain; Region: PRC; pfam05239 985006003517 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 985006003518 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 985006003519 Predicted membrane protein [Function unknown]; Region: COG4485 985006003520 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 985006003521 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 985006003522 GTP/Mg2+ binding site [chemical binding]; other site 985006003523 G4 box; other site 985006003524 G5 box; other site 985006003525 G1 box; other site 985006003526 Switch I region; other site 985006003527 G2 box; other site 985006003528 G3 box; other site 985006003529 Switch II region; other site 985006003530 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 985006003531 RNA/DNA hybrid binding site [nucleotide binding]; other site 985006003532 active site 985006003533 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 985006003534 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 985006003535 CoA-ligase; Region: Ligase_CoA; pfam00549 985006003536 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 985006003537 CoA binding domain; Region: CoA_binding; pfam02629 985006003538 CoA-ligase; Region: Ligase_CoA; pfam00549 985006003540 FemAB family; Region: FemAB; pfam02388 985006003541 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 985006003542 DNA protecting protein DprA; Region: dprA; TIGR00732 985006003543 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 985006003544 DNA topoisomerase I; Validated; Region: PRK05582 985006003545 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 985006003546 active site 985006003547 interdomain interaction site; other site 985006003548 putative metal-binding site [ion binding]; other site 985006003549 nucleotide binding site [chemical binding]; other site 985006003550 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 985006003551 domain I; other site 985006003552 DNA binding groove [nucleotide binding] 985006003553 phosphate binding site [ion binding]; other site 985006003554 domain II; other site 985006003555 domain III; other site 985006003556 nucleotide binding site [chemical binding]; other site 985006003557 catalytic site [active] 985006003558 domain IV; other site 985006003559 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 985006003560 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 985006003561 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 985006003562 Glucose inhibited division protein A; Region: GIDA; pfam01134 985006003563 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 985006003564 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 985006003565 active site 985006003566 DNA binding site [nucleotide binding] 985006003567 Int/Topo IB signature motif; other site 985006003568 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 985006003569 active site 985006003570 HslU subunit interaction site [polypeptide binding]; other site 985006003571 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 985006003572 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 985006003573 Walker A motif; other site 985006003574 ATP binding site [chemical binding]; other site 985006003575 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 985006003576 Walker B motif; other site 985006003577 arginine finger; other site 985006003578 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 985006003579 transcriptional repressor CodY; Validated; Region: PRK04158 985006003580 CodY GAF-like domain; Region: CodY; pfam06018 985006003581 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 985006003582 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 985006003583 rRNA interaction site [nucleotide binding]; other site 985006003584 S8 interaction site; other site 985006003585 putative laminin-1 binding site; other site 985006003586 elongation factor Ts; Provisional; Region: tsf; PRK09377 985006003587 UBA/TS-N domain; Region: UBA; pfam00627 985006003588 Elongation factor TS; Region: EF_TS; pfam00889 985006003589 Elongation factor TS; Region: EF_TS; pfam00889 985006003590 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 985006003591 putative nucleotide binding site [chemical binding]; other site 985006003592 uridine monophosphate binding site [chemical binding]; other site 985006003593 homohexameric interface [polypeptide binding]; other site 985006003594 ribosome recycling factor; Reviewed; Region: frr; PRK00083 985006003595 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 985006003596 hinge region; other site 985006003597 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 985006003598 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 985006003599 catalytic residue [active] 985006003600 putative FPP diphosphate binding site; other site 985006003601 putative FPP binding hydrophobic cleft; other site 985006003602 dimer interface [polypeptide binding]; other site 985006003603 putative IPP diphosphate binding site; other site 985006003604 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 985006003605 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 985006003606 RIP metalloprotease RseP; Region: TIGR00054 985006003607 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 985006003608 active site 985006003609 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 985006003610 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 985006003611 protein binding site [polypeptide binding]; other site 985006003612 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 985006003613 putative substrate binding region [chemical binding]; other site 985006003614 prolyl-tRNA synthetase; Provisional; Region: PRK09194 985006003615 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 985006003616 dimer interface [polypeptide binding]; other site 985006003617 motif 1; other site 985006003618 active site 985006003619 motif 2; other site 985006003620 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 985006003621 putative deacylase active site [active] 985006003622 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 985006003623 active site 985006003624 motif 3; other site 985006003625 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 985006003626 anticodon binding site; other site 985006003627 DNA polymerase III PolC; Validated; Region: polC; PRK00448 985006003628 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 985006003629 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 985006003630 generic binding surface II; other site 985006003631 generic binding surface I; other site 985006003632 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 985006003633 active site 985006003634 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 985006003635 active site 985006003636 catalytic site [active] 985006003637 substrate binding site [chemical binding]; other site 985006003638 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 985006003639 ribosome maturation protein RimP; Reviewed; Region: PRK00092 985006003640 Sm and related proteins; Region: Sm_like; cl00259 985006003641 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 985006003642 putative oligomer interface [polypeptide binding]; other site 985006003643 putative RNA binding site [nucleotide binding]; other site 985006003644 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 985006003645 NusA N-terminal domain; Region: NusA_N; pfam08529 985006003646 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 985006003647 RNA binding site [nucleotide binding]; other site 985006003648 homodimer interface [polypeptide binding]; other site 985006003649 NusA-like KH domain; Region: KH_5; pfam13184 985006003650 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 985006003651 G-X-X-G motif; other site 985006003652 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 985006003653 putative RNA binding cleft [nucleotide binding]; other site 985006003654 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 985006003655 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 985006003656 translation initiation factor IF-2; Region: IF-2; TIGR00487 985006003657 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 985006003658 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 985006003659 G1 box; other site 985006003660 putative GEF interaction site [polypeptide binding]; other site 985006003661 GTP/Mg2+ binding site [chemical binding]; other site 985006003662 Switch I region; other site 985006003663 G2 box; other site 985006003664 G3 box; other site 985006003665 Switch II region; other site 985006003666 G4 box; other site 985006003667 G5 box; other site 985006003668 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 985006003669 Translation-initiation factor 2; Region: IF-2; pfam11987 985006003670 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 985006003671 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 985006003672 tRNA pseudouridine synthase B; Provisional; Region: PRK14123 985006003673 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 985006003674 RNA binding site [nucleotide binding]; other site 985006003675 active site 985006003676 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 985006003677 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 985006003678 active site 985006003679 Riboflavin kinase; Region: Flavokinase; smart00904 985006003680 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 985006003681 16S/18S rRNA binding site [nucleotide binding]; other site 985006003682 S13e-L30e interaction site [polypeptide binding]; other site 985006003683 25S rRNA binding site [nucleotide binding]; other site 985006003684 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 985006003685 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 985006003686 RNase E interface [polypeptide binding]; other site 985006003687 trimer interface [polypeptide binding]; other site 985006003688 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 985006003689 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 985006003690 RNase E interface [polypeptide binding]; other site 985006003691 trimer interface [polypeptide binding]; other site 985006003692 active site 985006003693 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 985006003694 putative nucleic acid binding region [nucleotide binding]; other site 985006003695 G-X-X-G motif; other site 985006003696 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 985006003697 RNA binding site [nucleotide binding]; other site 985006003698 domain interface; other site 985006003699 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 985006003700 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 985006003701 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 985006003702 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 985006003703 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 985006003704 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 985006003705 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 985006003706 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 985006003707 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 985006003708 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 985006003709 DNA-binding site [nucleotide binding]; DNA binding site 985006003710 UTRA domain; Region: UTRA; pfam07702 985006003711 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 985006003712 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 985006003713 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 985006003714 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 985006003715 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 985006003716 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 985006003717 classical (c) SDRs; Region: SDR_c; cd05233 985006003718 NAD(P) binding site [chemical binding]; other site 985006003719 active site 985006003720 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 985006003721 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 985006003722 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 985006003723 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 985006003724 non-specific DNA binding site [nucleotide binding]; other site 985006003725 salt bridge; other site 985006003726 sequence-specific DNA binding site [nucleotide binding]; other site 985006003727 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 985006003728 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 985006003729 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 985006003730 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 985006003731 putative MPT binding site; other site 985006003732 recombinase A; Provisional; Region: recA; PRK09354 985006003733 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 985006003734 hexamer interface [polypeptide binding]; other site 985006003735 Walker A motif; other site 985006003736 ATP binding site [chemical binding]; other site 985006003737 Walker B motif; other site 985006003738 phosphodiesterase; Provisional; Region: PRK12704 985006003739 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985006003740 Zn2+ binding site [ion binding]; other site 985006003741 Mg2+ binding site [ion binding]; other site 985006003742 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 985006003743 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 985006003744 putative active site [active] 985006003745 metal binding site [ion binding]; metal-binding site 985006003746 homodimer binding site [polypeptide binding]; other site 985006003747 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 985006003748 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 985006003749 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 985006003750 dimer interface [polypeptide binding]; other site 985006003751 PYR/PP interface [polypeptide binding]; other site 985006003752 TPP binding site [chemical binding]; other site 985006003753 substrate binding site [chemical binding]; other site 985006003754 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 985006003755 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 985006003756 TPP-binding site [chemical binding]; other site 985006003757 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 985006003758 Uncharacterized conserved protein [Function unknown]; Region: COG0011 985006003759 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 985006003760 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 985006003761 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 985006003762 FeS/SAM binding site; other site 985006003763 TRAM domain; Region: TRAM; pfam01938 985006003764 Predicted membrane protein [Function unknown]; Region: COG4550 985006003765 Predicted membrane protein [Function unknown]; Region: COG4732 985006003766 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 985006003767 MutS domain I; Region: MutS_I; pfam01624 985006003768 MutS domain II; Region: MutS_II; pfam05188 985006003769 MutS domain III; Region: MutS_III; pfam05192 985006003770 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 985006003771 Walker A/P-loop; other site 985006003772 ATP binding site [chemical binding]; other site 985006003773 Q-loop/lid; other site 985006003774 ABC transporter signature motif; other site 985006003775 Walker B; other site 985006003776 D-loop; other site 985006003777 H-loop/switch region; other site 985006003778 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 985006003779 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 985006003780 ATP binding site [chemical binding]; other site 985006003781 Mg2+ binding site [ion binding]; other site 985006003782 G-X-G motif; other site 985006003783 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 985006003784 ATP binding site [chemical binding]; other site 985006003785 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 985006003786 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; pfam04309 985006003787 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 985006003788 amphipathic channel; other site 985006003789 Asn-Pro-Ala signature motifs; other site 985006003790 glycerol kinase; Provisional; Region: glpK; PRK00047 985006003791 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 985006003792 N- and C-terminal domain interface [polypeptide binding]; other site 985006003793 active site 985006003794 MgATP binding site [chemical binding]; other site 985006003795 catalytic site [active] 985006003796 metal binding site [ion binding]; metal-binding site 985006003797 glycerol binding site [chemical binding]; other site 985006003798 homotetramer interface [polypeptide binding]; other site 985006003799 homodimer interface [polypeptide binding]; other site 985006003800 FBP binding site [chemical binding]; other site 985006003801 protein IIAGlc interface [polypeptide binding]; other site 985006003802 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 985006003803 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 985006003804 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985006003805 Cofactor of BRCA1 (COBRA1); Region: COBRA1; pfam06209 985006003806 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 985006003807 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 985006003808 bacterial Hfq-like; Region: Hfq; cd01716 985006003809 hexamer interface [polypeptide binding]; other site 985006003810 Sm1 motif; other site 985006003811 RNA binding site [nucleotide binding]; other site 985006003812 Sm2 motif; other site 985006003813 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 985006003814 catalytic residues [active] 985006003815 dimer interface [polypeptide binding]; other site 985006003816 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 985006003817 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 985006003818 HflX GTPase family; Region: HflX; cd01878 985006003819 G1 box; other site 985006003820 GTP/Mg2+ binding site [chemical binding]; other site 985006003821 Switch I region; other site 985006003822 G2 box; other site 985006003823 G3 box; other site 985006003824 Switch II region; other site 985006003825 G4 box; other site 985006003826 G5 box; other site 985006003827 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 985006003828 Aluminium resistance protein; Region: Alum_res; pfam06838 985006003829 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 985006003830 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985006003831 DNA binding residues [nucleotide binding] 985006003832 putative dimer interface [polypeptide binding]; other site 985006003833 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 985006003834 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 985006003835 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 985006003836 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 985006003837 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 985006003838 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 985006003839 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 985006003840 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 985006003841 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 985006003842 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985006003843 catalytic residue [active] 985006003844 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 985006003845 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 985006003846 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 985006003847 putative active site [active] 985006003848 catalytic site [active] 985006003849 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 985006003850 putative active site [active] 985006003851 catalytic site [active] 985006003852 Staphylococcal nuclease homologues; Region: SNc; smart00318 985006003853 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 985006003854 Catalytic site; other site 985006003855 AAA domain; Region: AAA_11; pfam13086 985006003856 aspartate kinase; Reviewed; Region: PRK09034 985006003857 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 985006003858 putative catalytic residues [active] 985006003859 putative nucleotide binding site [chemical binding]; other site 985006003860 putative aspartate binding site [chemical binding]; other site 985006003861 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 985006003862 allosteric regulatory residue; other site 985006003863 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 985006003864 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 985006003865 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 985006003866 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 985006003867 threonine synthase; Reviewed; Region: PRK06721 985006003868 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 985006003869 homodimer interface [polypeptide binding]; other site 985006003870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006003871 catalytic residue [active] 985006003872 homoserine kinase; Provisional; Region: PRK01212 985006003873 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 985006003874 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985006003875 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 985006003876 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985006003877 active site 985006003878 motif I; other site 985006003879 motif II; other site 985006003880 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 985006003881 lysine transporter; Provisional; Region: PRK10836 985006003882 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 985006003883 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 985006003884 tetramer interface [polypeptide binding]; other site 985006003885 heme binding pocket [chemical binding]; other site 985006003886 NADPH binding site [chemical binding]; other site 985006003887 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 985006003888 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 985006003889 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 985006003890 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 985006003891 active site 985006003892 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 985006003893 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 985006003894 LexA repressor; Validated; Region: PRK00215 985006003895 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 985006003896 putative DNA binding site [nucleotide binding]; other site 985006003897 putative Zn2+ binding site [ion binding]; other site 985006003898 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 985006003899 Catalytic site [active] 985006003900 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 985006003901 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 985006003902 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 985006003903 TPP-binding site [chemical binding]; other site 985006003904 dimer interface [polypeptide binding]; other site 985006003905 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 985006003906 PYR/PP interface [polypeptide binding]; other site 985006003907 dimer interface [polypeptide binding]; other site 985006003908 TPP binding site [chemical binding]; other site 985006003909 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985006003910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 985006003911 Membrane protein involved in cytochrome C biogenesis [Posttranslational modification, protein turnover, chaperones]; Region: CcdC; COG4846 985006003912 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 985006003913 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 985006003914 active site 985006003915 metal binding site [ion binding]; metal-binding site 985006003916 DNA binding site [nucleotide binding] 985006003917 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 985006003918 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 985006003919 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 985006003920 Walker A/P-loop; other site 985006003921 ATP binding site [chemical binding]; other site 985006003922 Q-loop/lid; other site 985006003923 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 985006003924 ABC transporter signature motif; other site 985006003925 Walker B; other site 985006003926 D-loop; other site 985006003927 H-loop/switch region; other site 985006003929 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 985006003930 aconitate hydratase; Validated; Region: PRK09277 985006003931 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 985006003932 substrate binding site [chemical binding]; other site 985006003933 ligand binding site [chemical binding]; other site 985006003934 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 985006003935 substrate binding site [chemical binding]; other site 985006003936 Transposase; Region: HTH_Tnp_1; cl17663 985006003937 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 985006003938 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 985006003939 Helix-turn-helix domain; Region: HTH_28; pfam13518 985006003940 HTH-like domain; Region: HTH_21; pfam13276 985006003941 Integrase core domain; Region: rve; pfam00665 985006003942 Integrase core domain; Region: rve_3; cl15866 985006003943 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 985006003944 active site 985006003945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 985006003946 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 985006003947 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 985006003948 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 985006003949 ATP binding site [chemical binding]; other site 985006003950 Mg2+ binding site [ion binding]; other site 985006003951 G-X-G motif; other site 985006003952 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 985006003953 anchoring element; other site 985006003954 dimer interface [polypeptide binding]; other site 985006003955 ATP binding site [chemical binding]; other site 985006003956 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 985006003957 active site 985006003958 putative metal-binding site [ion binding]; other site 985006003959 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 985006003960 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 985006003961 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 985006003962 CAP-like domain; other site 985006003963 active site 985006003964 primary dimer interface [polypeptide binding]; other site 985006003965 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985006003966 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 985006003967 amino acid carrier protein; Region: agcS; TIGR00835 985006003968 CAT RNA binding domain; Region: CAT_RBD; smart01061 985006003969 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985006003970 PRD domain; Region: PRD; pfam00874 985006003971 PRD domain; Region: PRD; pfam00874 985006003972 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 985006003973 Domain of unknown function DUF20; Region: UPF0118; pfam01594 985006003974 Predicted integral membrane protein [Function unknown]; Region: COG0392 985006003975 Uncharacterized conserved protein [Function unknown]; Region: COG2898 985006003976 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 985006003977 methionine sulfoxide reductase A; Provisional; Region: PRK14054 985006003978 Transcriptional regulator [Transcription]; Region: LytR; COG1316 985006003979 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 985006003980 active site 1 [active] 985006003981 dimer interface [polypeptide binding]; other site 985006003982 hexamer interface [polypeptide binding]; other site 985006003983 active site 2 [active] 985006003984 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 985006003985 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 985006003986 active site 985006003987 DNA binding site [nucleotide binding] 985006003988 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 985006003989 prephenate dehydrogenase; Validated; Region: PRK06545 985006003990 prephenate dehydrogenase; Validated; Region: PRK08507 985006003991 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 985006003992 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 985006003993 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 985006003994 putative oligomer interface [polypeptide binding]; other site 985006003995 putative active site [active] 985006003996 metal binding site [ion binding]; metal-binding site 985006003997 anthranilate synthase component I; Provisional; Region: PRK13567 985006003998 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 985006003999 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 985006004000 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 985006004001 Glutamine amidotransferase class-I; Region: GATase; pfam00117 985006004002 glutamine binding [chemical binding]; other site 985006004003 catalytic triad [active] 985006004004 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 985006004005 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 985006004006 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 985006004007 active site 985006004008 ribulose/triose binding site [chemical binding]; other site 985006004009 phosphate binding site [ion binding]; other site 985006004010 substrate (anthranilate) binding pocket [chemical binding]; other site 985006004011 product (indole) binding pocket [chemical binding]; other site 985006004012 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 985006004013 active site 985006004014 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 985006004015 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 985006004016 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006004017 catalytic residue [active] 985006004018 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 985006004019 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 985006004020 substrate binding site [chemical binding]; other site 985006004021 active site 985006004022 catalytic residues [active] 985006004023 heterodimer interface [polypeptide binding]; other site 985006004024 FemAB family; Region: FemAB; pfam02388 985006004025 FlxA-like protein; Region: FlxA; pfam14282 985006004026 FemAB family; Region: FemAB; pfam02388 985006004031 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 985006004032 putative acyl-acceptor binding pocket; other site 985006004033 CDS contains a frameshift around codon 238 985006004036 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985006004037 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985006004038 Walker A/P-loop; other site 985006004039 ATP binding site [chemical binding]; other site 985006004040 Q-loop/lid; other site 985006004041 ABC transporter signature motif; other site 985006004042 Walker B; other site 985006004043 D-loop; other site 985006004044 H-loop/switch region; other site 985006004045 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985006004046 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 985006004047 Walker A/P-loop; other site 985006004048 ATP binding site [chemical binding]; other site 985006004049 Q-loop/lid; other site 985006004050 ABC transporter signature motif; other site 985006004051 Walker B; other site 985006004052 D-loop; other site 985006004053 H-loop/switch region; other site 985006004054 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 985006004055 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 985006004056 dimer interface [polypeptide binding]; other site 985006004057 conserved gate region; other site 985006004058 putative PBP binding loops; other site 985006004059 ABC-ATPase subunit interface; other site 985006004060 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985006004061 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 985006004062 dimer interface [polypeptide binding]; other site 985006004063 conserved gate region; other site 985006004064 putative PBP binding loops; other site 985006004065 ABC-ATPase subunit interface; other site 985006004066 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 985006004067 oligoendopeptidase F; Region: pepF; TIGR00181 985006004068 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 985006004069 active site 985006004070 Zn binding site [ion binding]; other site 985006004071 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 985006004072 PhoU domain; Region: PhoU; pfam01895 985006004073 PhoU domain; Region: PhoU; pfam01895 985006004074 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 985006004075 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 985006004076 Walker A/P-loop; other site 985006004077 ATP binding site [chemical binding]; other site 985006004078 Q-loop/lid; other site 985006004079 ABC transporter signature motif; other site 985006004080 Walker B; other site 985006004081 D-loop; other site 985006004082 H-loop/switch region; other site 985006004083 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 985006004084 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 985006004085 dimer interface [polypeptide binding]; other site 985006004086 conserved gate region; other site 985006004087 putative PBP binding loops; other site 985006004088 ABC-ATPase subunit interface; other site 985006004089 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 985006004090 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 985006004091 dimer interface [polypeptide binding]; other site 985006004092 conserved gate region; other site 985006004093 ABC-ATPase subunit interface; other site 985006004094 phosphate binding protein; Region: ptsS_2; TIGR02136 985006004095 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 985006004096 S1 domain; Region: S1_2; pfam13509 985006004097 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 985006004098 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985006004099 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985006004100 ABC transporter; Region: ABC_tran_2; pfam12848 985006004101 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985006004102 aspartate kinase; Reviewed; Region: PRK06635 985006004103 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 985006004104 putative nucleotide binding site [chemical binding]; other site 985006004105 putative catalytic residues [active] 985006004106 putative Mg ion binding site [ion binding]; other site 985006004107 putative aspartate binding site [chemical binding]; other site 985006004108 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 985006004109 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 985006004110 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 985006004111 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 985006004112 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 985006004113 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 985006004114 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 985006004115 dimer interface [polypeptide binding]; other site 985006004116 active site 985006004117 catalytic residue [active] 985006004118 dihydrodipicolinate reductase; Provisional; Region: PRK00048 985006004119 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 985006004120 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 985006004121 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 985006004122 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 985006004123 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 985006004124 active site 985006004125 trimer interface [polypeptide binding]; other site 985006004126 substrate binding site [chemical binding]; other site 985006004127 CoA binding site [chemical binding]; other site 985006004128 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985006004129 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985006004130 metal binding site [ion binding]; metal-binding site 985006004131 dimer interface [polypeptide binding]; other site 985006004132 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 985006004133 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 985006004134 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985006004135 catalytic residue [active] 985006004136 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 985006004137 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 985006004138 active site 985006004139 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985006004140 substrate binding site [chemical binding]; other site 985006004141 catalytic residues [active] 985006004142 dimer interface [polypeptide binding]; other site 985006004143 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 985006004144 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 985006004145 DNA-binding site [nucleotide binding]; DNA binding site 985006004146 RNA-binding motif; other site 985006004147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4699 985006004148 acylphosphatase; Provisional; Region: PRK14431 985006004149 5-bromo-4-chloroindolyl phosphate hydrolysis protein [General function prediction only]; Region: XpaC; COG4915 985006004150 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 985006004151 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 985006004152 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 985006004153 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 985006004154 metal ion-dependent adhesion site (MIDAS); other site 985006004155 MoxR-like ATPases [General function prediction only]; Region: COG0714 985006004156 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 985006004157 Walker A motif; other site 985006004158 ATP binding site [chemical binding]; other site 985006004159 Walker B motif; other site 985006004160 arginine finger; other site 985006004161 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 985006004162 active site 985006004163 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 985006004164 active site 985006004165 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 985006004166 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 985006004167 E3 interaction surface; other site 985006004168 lipoyl attachment site [posttranslational modification]; other site 985006004169 e3 binding domain; Region: E3_binding; pfam02817 985006004170 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 985006004171 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 985006004172 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 985006004173 TPP-binding site [chemical binding]; other site 985006004174 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; cl00240 985006004175 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 985006004176 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985006004177 HAMP domain; Region: HAMP; pfam00672 985006004178 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 985006004179 dimer interface [polypeptide binding]; other site 985006004180 phosphorylation site [posttranslational modification] 985006004181 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 985006004182 ATP binding site [chemical binding]; other site 985006004183 Mg2+ binding site [ion binding]; other site 985006004184 G-X-G motif; other site 985006004185 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985006004186 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006004187 active site 985006004188 phosphorylation site [posttranslational modification] 985006004189 intermolecular recognition site; other site 985006004190 dimerization interface [polypeptide binding]; other site 985006004191 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 985006004192 DNA binding site [nucleotide binding] 985006004193 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 985006004194 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 985006004195 active site 985006004196 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 985006004197 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 985006004198 active site 985006004199 homodimer interface [polypeptide binding]; other site 985006004200 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006004201 Coenzyme A binding pocket [chemical binding]; other site 985006004202 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 985006004203 C-terminal peptidase (prc); Region: prc; TIGR00225 985006004204 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 985006004205 protein binding site [polypeptide binding]; other site 985006004206 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 985006004207 Catalytic dyad [active] 985006004208 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 985006004209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4479 985006004210 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985006004211 HPr interaction site; other site 985006004212 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985006004213 active site 985006004214 phosphorylation site [posttranslational modification] 985006004215 methionine sulfoxide reductase B; Provisional; Region: PRK00222 985006004216 SelR domain; Region: SelR; pfam01641 985006004217 methionine sulfoxide reductase A; Provisional; Region: PRK13014 985006004218 EDD domain protein, DegV family; Region: DegV; TIGR00762 985006004219 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 985006004220 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 985006004221 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 985006004222 folate binding site [chemical binding]; other site 985006004223 NADP+ binding site [chemical binding]; other site 985006004224 thymidylate synthase; Region: thym_sym; TIGR03284 985006004225 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 985006004226 dimerization interface [polypeptide binding]; other site 985006004227 active site 985006004228 Disulphide isomerase; Region: Disulph_isomer; cl05813 985006004229 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 985006004230 Virulence factor; Region: Virulence_fact; pfam13769 985006004231 HEAT repeats; Region: HEAT_2; pfam13646 985006004232 HEAT repeat; Region: HEAT; pfam02985 985006004233 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 985006004234 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 985006004235 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 985006004236 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 985006004237 RNA/DNA hybrid binding site [nucleotide binding]; other site 985006004238 active site 985006004239 CDS contains a frameshift after codon 10249. Frameshift occurs at a poly A hexamer 985006004240 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985006004241 Amino acid permease; Region: AA_permease_2; pfam13520 985006004242 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 985006004243 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 985006004244 tetramer interface [polypeptide binding]; other site 985006004245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006004246 catalytic residue [active] 985006004247 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 985006004248 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 985006004249 hexamer interface [polypeptide binding]; other site 985006004250 ligand binding site [chemical binding]; other site 985006004251 putative active site [active] 985006004252 NAD(P) binding site [chemical binding]; other site 985006004253 5'-3' exonuclease; Region: 53EXOc; smart00475 985006004254 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 985006004255 active site 985006004256 metal binding site 1 [ion binding]; metal-binding site 985006004257 putative 5' ssDNA interaction site; other site 985006004258 metal binding site 3; metal-binding site 985006004259 metal binding site 2 [ion binding]; metal-binding site 985006004260 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 985006004261 putative DNA binding site [nucleotide binding]; other site 985006004262 putative metal binding site [ion binding]; other site 985006004263 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 985006004264 Dynamin family; Region: Dynamin_N; pfam00350 985006004265 G1 box; other site 985006004266 GTP/Mg2+ binding site [chemical binding]; other site 985006004267 G2 box; other site 985006004268 Switch I region; other site 985006004269 G3 box; other site 985006004270 Switch II region; other site 985006004271 G4 box; other site 985006004272 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 985006004273 Dynamin family; Region: Dynamin_N; pfam00350 985006004274 G1 box; other site 985006004275 GTP/Mg2+ binding site [chemical binding]; other site 985006004276 G2 box; other site 985006004277 Switch I region; other site 985006004278 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 985006004279 G3 box; other site 985006004280 Switch II region; other site 985006004281 GTP/Mg2+ binding site [chemical binding]; other site 985006004282 G4 box; other site 985006004283 G5 box; other site 985006004284 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 985006004285 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 985006004286 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 985006004287 Cobalt transport protein component CbiN; Region: CbiN; cl00842 985006004288 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 985006004289 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 985006004290 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 985006004291 cell division protein GpsB; Provisional; Region: PRK14127 985006004292 DivIVA domain; Region: DivI1A_domain; TIGR03544 985006004293 hypothetical protein; Provisional; Region: PRK13660 985006004294 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 985006004295 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 985006004296 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 985006004297 Transglycosylase; Region: Transgly; pfam00912 985006004298 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 985006004299 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 985006004300 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 985006004301 minor groove reading motif; other site 985006004302 helix-hairpin-helix signature motif; other site 985006004303 substrate binding pocket [chemical binding]; other site 985006004304 active site 985006004305 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 985006004306 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 985006004307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 985006004308 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 985006004309 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 985006004310 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 985006004311 putative dimer interface [polypeptide binding]; other site 985006004312 putative anticodon binding site; other site 985006004313 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 985006004314 homodimer interface [polypeptide binding]; other site 985006004315 motif 1; other site 985006004316 motif 2; other site 985006004317 active site 985006004318 motif 3; other site 985006004319 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 985006004320 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 985006004321 active site 985006004322 catalytic site [active] 985006004323 substrate binding site [chemical binding]; other site 985006004324 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 985006004325 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 985006004326 Biotin operon repressor [Transcription]; Region: BirA; COG1654 985006004327 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 985006004328 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 985006004329 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 985006004330 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 985006004331 active site 985006004332 NTP binding site [chemical binding]; other site 985006004333 metal binding triad [ion binding]; metal-binding site 985006004334 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 985006004335 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 985006004336 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 985006004337 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 985006004338 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 985006004339 homodimer interface [polypeptide binding]; other site 985006004340 metal binding site [ion binding]; metal-binding site 985006004341 Predicted Zn-dependent protease [General function prediction only]; Region: COG2738 985006004342 Predicted membrane protein [Function unknown]; Region: COG4347 985006004343 Uncharacterized conserved protein [Function unknown]; Region: COG5582 985006004344 UPF0302 domain; Region: UPF0302; pfam08864 985006004345 A short protein domain of unknown function; Region: IDEAL; smart00914 985006004346 TPR repeat; Region: TPR_11; pfam13414 985006004347 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 985006004348 binding surface 985006004349 TPR motif; other site 985006004350 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 985006004351 TPR motif; other site 985006004352 binding surface 985006004353 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 985006004354 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 985006004355 hinge; other site 985006004356 active site 985006004357 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 985006004358 active site 985006004359 NAD binding site [chemical binding]; other site 985006004360 metal binding site [ion binding]; metal-binding site 985006004361 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 985006004362 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 985006004363 Tetramer interface [polypeptide binding]; other site 985006004364 active site 985006004365 FMN-binding site [chemical binding]; other site 985006004366 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 985006004367 active site 985006004368 multimer interface [polypeptide binding]; other site 985006004369 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 985006004370 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 985006004371 substrate binding pocket [chemical binding]; other site 985006004372 chain length determination region; other site 985006004373 substrate-Mg2+ binding site; other site 985006004374 catalytic residues [active] 985006004375 aspartate-rich region 1; other site 985006004376 active site lid residues [active] 985006004377 aspartate-rich region 2; other site 985006004378 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 985006004379 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 985006004380 S-adenosylmethionine binding site [chemical binding]; other site 985006004381 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 985006004382 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 985006004383 IHF dimer interface [polypeptide binding]; other site 985006004384 IHF - DNA interface [nucleotide binding]; other site 985006004385 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 985006004386 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 985006004387 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 985006004388 GTP-binding protein Der; Reviewed; Region: PRK00093 985006004389 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 985006004390 G1 box; other site 985006004391 GTP/Mg2+ binding site [chemical binding]; other site 985006004392 Switch I region; other site 985006004393 G2 box; other site 985006004394 Switch II region; other site 985006004395 G3 box; other site 985006004396 G4 box; other site 985006004397 G5 box; other site 985006004398 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 985006004399 G1 box; other site 985006004400 GTP/Mg2+ binding site [chemical binding]; other site 985006004401 Switch I region; other site 985006004402 G2 box; other site 985006004403 G3 box; other site 985006004404 Switch II region; other site 985006004405 G4 box; other site 985006004406 G5 box; other site 985006004407 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 985006004408 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 985006004409 RNA binding site [nucleotide binding]; other site 985006004410 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 985006004411 RNA binding site [nucleotide binding]; other site 985006004412 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 985006004413 RNA binding site [nucleotide binding]; other site 985006004414 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 985006004415 RNA binding site [nucleotide binding]; other site 985006004416 cytidylate kinase; Provisional; Region: cmk; PRK00023 985006004417 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 985006004418 CMP-binding site; other site 985006004419 The sites determining sugar specificity; other site 985006004420 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 985006004421 active site 985006004422 homotetramer interface [polypeptide binding]; other site 985006004423 homodimer interface [polypeptide binding]; other site 985006004424 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 985006004425 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 985006004426 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985006004427 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985006004428 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 985006004429 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 985006004430 ATP binding site [chemical binding]; other site 985006004431 putative Mg++ binding site [ion binding]; other site 985006004432 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 985006004433 nucleotide binding region [chemical binding]; other site 985006004434 ATP-binding site [chemical binding]; other site 985006004435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 985006004436 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 985006004437 Predicted membrane protein [Function unknown]; Region: COG3601 985006004438 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 985006004440 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 985006004441 dimerization interface [polypeptide binding]; other site 985006004442 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 985006004443 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 985006004444 dimer interface [polypeptide binding]; other site 985006004445 phosphorylation site [posttranslational modification] 985006004446 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 985006004447 ATP binding site [chemical binding]; other site 985006004448 Mg2+ binding site [ion binding]; other site 985006004449 G-X-G motif; other site 985006004450 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985006004451 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006004452 active site 985006004453 phosphorylation site [posttranslational modification] 985006004454 intermolecular recognition site; other site 985006004455 dimerization interface [polypeptide binding]; other site 985006004456 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 985006004457 DNA binding site [nucleotide binding] 985006004458 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 985006004459 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 985006004460 RNA binding surface [nucleotide binding]; other site 985006004461 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 985006004462 active site 985006004463 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 985006004464 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 985006004465 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1547 985006004466 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 985006004467 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 985006004468 active site 985006004469 Int/Topo IB signature motif; other site 985006004470 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 985006004471 metal binding site 2 [ion binding]; metal-binding site 985006004472 putative DNA binding helix; other site 985006004473 metal binding site 1 [ion binding]; metal-binding site 985006004474 dimer interface [polypeptide binding]; other site 985006004475 structural Zn2+ binding site [ion binding]; other site 985006004476 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 985006004477 dimer interface [polypeptide binding]; other site 985006004478 ADP-ribose binding site [chemical binding]; other site 985006004479 active site 985006004480 nudix motif; other site 985006004481 metal binding site [ion binding]; metal-binding site 985006004482 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 985006004483 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985006004484 active site 985006004485 catalytic tetrad [active] 985006004486 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 985006004487 classical (c) SDRs; Region: SDR_c; cd05233 985006004488 NAD(P) binding site [chemical binding]; other site 985006004489 active site 985006004490 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 985006004491 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 985006004492 ribonuclease Z; Region: RNase_Z; TIGR02651 985006004493 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 985006004494 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 985006004495 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 985006004496 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985006004497 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 985006004498 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 985006004499 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 985006004500 Ca binding site [ion binding]; other site 985006004501 active site 985006004502 catalytic site [active] 985006004503 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985006004504 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985006004505 DNA binding site [nucleotide binding] 985006004506 domain linker motif; other site 985006004507 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 985006004508 putative ligand binding site [chemical binding]; other site 985006004509 putative dimerization interface [polypeptide binding]; other site 985006004510 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985006004511 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 985006004512 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 985006004513 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 985006004514 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 985006004515 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 985006004516 peptidase T-like protein; Region: PepT-like; TIGR01883 985006004517 metal binding site [ion binding]; metal-binding site 985006004518 putative dimer interface [polypeptide binding]; other site 985006004519 Predicted membrane protein [Function unknown]; Region: COG4129 985006004520 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 985006004521 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 985006004522 Disulphide isomerase; Region: Disulph_isomer; pfam06491 985006004523 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 985006004524 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 985006004525 E3 interaction surface; other site 985006004526 lipoyl attachment site [posttranslational modification]; other site 985006004527 e3 binding domain; Region: E3_binding; pfam02817 985006004528 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 985006004529 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 985006004530 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 985006004531 alpha subunit interface [polypeptide binding]; other site 985006004532 TPP binding site [chemical binding]; other site 985006004533 heterodimer interface [polypeptide binding]; other site 985006004534 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985006004535 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 985006004536 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 985006004537 tetramer interface [polypeptide binding]; other site 985006004538 TPP-binding site [chemical binding]; other site 985006004539 heterodimer interface [polypeptide binding]; other site 985006004540 phosphorylation loop region [posttranslational modification] 985006004541 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 985006004542 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 985006004543 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985006004544 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985006004545 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 985006004546 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 985006004547 Walker A/P-loop; other site 985006004548 ATP binding site [chemical binding]; other site 985006004549 Q-loop/lid; other site 985006004550 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 985006004551 ABC transporter signature motif; other site 985006004552 Walker B; other site 985006004553 D-loop; other site 985006004554 H-loop/switch region; other site 985006004555 arginine repressor; Provisional; Region: PRK04280 985006004556 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 985006004557 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 985006004558 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 985006004559 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 985006004560 substrate binding pocket [chemical binding]; other site 985006004561 chain length determination region; other site 985006004562 substrate-Mg2+ binding site; other site 985006004563 catalytic residues [active] 985006004564 aspartate-rich region 1; other site 985006004565 active site lid residues [active] 985006004566 aspartate-rich region 2; other site 985006004567 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14068 985006004568 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 985006004569 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 985006004570 generic binding surface II; other site 985006004571 generic binding surface I; other site 985006004572 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 985006004573 putative RNA binding site [nucleotide binding]; other site 985006004574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 985006004575 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 985006004576 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985006004577 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 985006004578 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 985006004579 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 985006004580 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 985006004581 carboxyltransferase (CT) interaction site; other site 985006004582 biotinylation site [posttranslational modification]; other site 985006004583 elongation factor P; Validated; Region: PRK00529 985006004584 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 985006004585 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 985006004586 RNA binding site [nucleotide binding]; other site 985006004587 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 985006004588 RNA binding site [nucleotide binding]; other site 985006004589 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 985006004590 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 985006004591 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 985006004592 active site 985006004593 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 985006004594 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 985006004595 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 985006004596 active site residue [active] 985006004597 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 985006004598 tetramer interface [polypeptide binding]; other site 985006004599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006004600 catalytic residue [active] 985006004601 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 985006004602 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 985006004603 tetramer interface [polypeptide binding]; other site 985006004604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006004605 catalytic residue [active] 985006004606 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 985006004607 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 985006004608 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 985006004609 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 985006004610 ADP binding site [chemical binding]; other site 985006004611 magnesium binding site [ion binding]; other site 985006004612 putative shikimate binding site; other site 985006004613 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 985006004614 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 985006004615 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 985006004616 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 985006004617 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 985006004618 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 985006004619 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 985006004620 Type II/IV secretion system protein; Region: T2SE; pfam00437 985006004621 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 985006004622 Walker A motif; other site 985006004623 ATP binding site [chemical binding]; other site 985006004624 Walker B motif; other site 985006004625 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 985006004626 Uncharacterized conserved protein [Function unknown]; Region: COG0011 985006004627 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 985006004628 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 985006004629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4483 985006004630 Rhomboid family; Region: Rhomboid; pfam01694 985006004631 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 985006004632 binding surface 985006004633 TPR motif; other site 985006004634 Tetratricopeptide repeat; Region: TPR_16; pfam13432 985006004635 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 985006004636 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 985006004637 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 985006004638 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 985006004639 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 985006004640 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 985006004641 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 985006004642 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 985006004643 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 985006004644 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 985006004645 metal binding site 2 [ion binding]; metal-binding site 985006004646 putative DNA binding helix; other site 985006004647 metal binding site 1 [ion binding]; metal-binding site 985006004648 dimer interface [polypeptide binding]; other site 985006004649 structural Zn2+ binding site [ion binding]; other site 985006004650 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 985006004651 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 985006004652 ABC-ATPase subunit interface; other site 985006004653 dimer interface [polypeptide binding]; other site 985006004654 putative PBP binding regions; other site 985006004655 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 985006004656 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 985006004657 endonuclease IV; Provisional; Region: PRK01060 985006004658 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 985006004659 AP (apurinic/apyrimidinic) site pocket; other site 985006004660 DNA interaction; other site 985006004661 Metal-binding active site; metal-binding site 985006004662 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 985006004663 DEAD-like helicases superfamily; Region: DEXDc; smart00487 985006004664 ATP binding site [chemical binding]; other site 985006004665 putative Mg++ binding site [ion binding]; other site 985006004666 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 985006004667 nucleotide binding region [chemical binding]; other site 985006004668 ATP-binding site [chemical binding]; other site 985006004669 Uncharacterized conserved protein [Function unknown]; Region: COG0327 985006004670 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 985006004671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 985006004672 Uncharacterized conserved protein [Function unknown]; Region: COG0327 985006004673 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 985006004674 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 985006004675 Family of unknown function (DUF633); Region: DUF633; pfam04816 985006004676 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 985006004677 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 985006004678 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 985006004679 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985006004680 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 985006004681 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 985006004682 DNA binding residues [nucleotide binding] 985006004683 DNA primase, catalytic core; Region: dnaG; TIGR01391 985006004684 CHC2 zinc finger; Region: zf-CHC2; pfam01807 985006004685 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 985006004686 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 985006004687 active site 985006004688 metal binding site [ion binding]; metal-binding site 985006004689 interdomain interaction site; other site 985006004690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 985006004691 HTH domain; Region: HTH_11; cl17392 985006004692 FOG: CBS domain [General function prediction only]; Region: COG0517 985006004693 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_4; cd04617 985006004694 glycyl-tRNA synthetase; Provisional; Region: PRK04173 985006004695 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 985006004696 motif 1; other site 985006004697 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 985006004698 active site 985006004699 motif 2; other site 985006004700 motif 3; other site 985006004701 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 985006004702 anticodon binding site; other site 985006004703 DNA repair protein RecO; Region: reco; TIGR00613 985006004704 Recombination protein O N terminal; Region: RecO_N; pfam11967 985006004705 Recombination protein O C terminal; Region: RecO_C; pfam02565 985006004706 GTPase Era; Reviewed; Region: era; PRK00089 985006004707 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 985006004708 G1 box; other site 985006004709 GTP/Mg2+ binding site [chemical binding]; other site 985006004710 Switch I region; other site 985006004711 G2 box; other site 985006004712 Switch II region; other site 985006004713 G3 box; other site 985006004714 G4 box; other site 985006004715 G5 box; other site 985006004716 KH domain; Region: KH_2; pfam07650 985006004717 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 985006004718 active site 985006004719 catalytic motif [active] 985006004720 Zn binding site [ion binding]; other site 985006004721 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 985006004722 metal-binding heat shock protein; Provisional; Region: PRK00016 985006004723 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 985006004724 PhoH-like protein; Region: PhoH; pfam02562 985006004725 hypothetical protein; Provisional; Region: PRK13665 985006004726 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 985006004727 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 985006004728 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 985006004729 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 985006004730 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 985006004731 FeS/SAM binding site; other site 985006004732 TRAM domain; Region: TRAM; cl01282 985006004733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 985006004734 RNA methyltransferase, RsmE family; Region: TIGR00046 985006004735 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 985006004736 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 985006004737 S-adenosylmethionine binding site [chemical binding]; other site 985006004738 chaperone protein DnaJ; Provisional; Region: PRK14280 985006004739 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 985006004740 HSP70 interaction site [polypeptide binding]; other site 985006004741 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 985006004742 substrate binding site [polypeptide binding]; other site 985006004743 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 985006004744 Zn binding sites [ion binding]; other site 985006004745 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 985006004746 dimer interface [polypeptide binding]; other site 985006004747 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 985006004748 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 985006004749 nucleotide binding site [chemical binding]; other site 985006004750 NEF interaction site [polypeptide binding]; other site 985006004751 SBD interface [polypeptide binding]; other site 985006004752 heat shock protein GrpE; Provisional; Region: PRK14140 985006004753 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 985006004754 dimer interface [polypeptide binding]; other site 985006004755 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 985006004756 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 985006004757 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 985006004758 Tubulin C-terminal domain; Region: Tubulin_C; cl10021 985006004759 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 985006004760 FeS/SAM binding site; other site 985006004761 HemN C-terminal domain; Region: HemN_C; pfam06969 985006004762 GTP-binding protein LepA; Provisional; Region: PRK05433 985006004763 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 985006004764 G1 box; other site 985006004765 putative GEF interaction site [polypeptide binding]; other site 985006004766 GTP/Mg2+ binding site [chemical binding]; other site 985006004767 Switch I region; other site 985006004768 G2 box; other site 985006004769 G3 box; other site 985006004770 Switch II region; other site 985006004771 G4 box; other site 985006004772 G5 box; other site 985006004773 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 985006004774 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 985006004775 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 985006004776 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 985006004777 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 985006004778 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 985006004779 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 985006004780 Competence protein; Region: Competence; pfam03772 985006004781 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 985006004782 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 985006004783 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 985006004784 catalytic motif [active] 985006004785 Zn binding site [ion binding]; other site 985006004786 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 985006004787 Helix-hairpin-helix motif; Region: HHH; pfam00633 985006004788 Methyltransferase domain; Region: Methyltransf_31; pfam13847 985006004789 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 985006004790 S-adenosylmethionine binding site [chemical binding]; other site 985006004791 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 985006004792 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985006004793 Zn2+ binding site [ion binding]; other site 985006004794 Mg2+ binding site [ion binding]; other site 985006004795 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 985006004796 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 985006004797 active site 985006004798 (T/H)XGH motif; other site 985006004799 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 985006004800 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 985006004801 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 985006004802 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 985006004803 shikimate binding site; other site 985006004804 NAD(P) binding site [chemical binding]; other site 985006004805 GTPase YqeH; Provisional; Region: PRK13796 985006004806 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 985006004807 GTP/Mg2+ binding site [chemical binding]; other site 985006004808 G4 box; other site 985006004809 G5 box; other site 985006004810 G1 box; other site 985006004811 Switch I region; other site 985006004812 G2 box; other site 985006004813 G3 box; other site 985006004814 Switch II region; other site 985006004815 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 985006004816 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 985006004817 active site 985006004818 motif I; other site 985006004819 motif II; other site 985006004820 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 985006004821 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 985006004822 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 985006004823 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985006004824 Fic family protein [Function unknown]; Region: COG3177 985006004825 Fic/DOC family; Region: Fic; pfam02661 985006004826 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 985006004827 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 985006004828 putative active site [active] 985006004829 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985006004830 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 985006004831 ATP-grasp domain; Region: ATP-grasp_4; cl17255 985006004832 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 985006004833 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 985006004834 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 985006004835 carboxyltransferase (CT) interaction site; other site 985006004836 biotinylation site [posttranslational modification]; other site 985006004837 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 985006004838 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 985006004839 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 985006004840 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 985006004841 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 985006004842 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 985006004843 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 985006004844 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 985006004845 Sugar specificity; other site 985006004846 Pyrimidine base specificity; other site 985006004847 ATP-binding site [chemical binding]; other site 985006004848 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 985006004849 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 985006004850 Peptidase family U32; Region: Peptidase_U32; pfam01136 985006004851 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 985006004852 Peptidase family U32; Region: Peptidase_U32; pfam01136 985006004853 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 985006004854 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 985006004855 S-adenosylmethionine binding site [chemical binding]; other site 985006004856 hypothetical protein; Provisional; Region: PRK13678 985006004857 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 985006004858 hypothetical protein; Provisional; Region: PRK05473 985006004859 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 985006004860 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 985006004861 motif 1; other site 985006004862 active site 985006004863 motif 2; other site 985006004864 motif 3; other site 985006004865 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 985006004866 DHHA1 domain; Region: DHHA1; pfam02272 985006004867 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 985006004868 AAA domain; Region: AAA_30; pfam13604 985006004869 Family description; Region: UvrD_C_2; pfam13538 985006004870 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 985006004871 binding surface 985006004872 TPR motif; other site 985006004873 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 985006004874 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 985006004875 binding surface 985006004876 TPR motif; other site 985006004877 TPR repeat; Region: TPR_11; pfam13414 985006004878 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 985006004879 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 985006004880 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 985006004881 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 985006004882 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985006004883 catalytic residue [active] 985006004884 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 985006004885 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 985006004886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 985006004887 Predicted transcriptional regulator [Transcription]; Region: COG1959 985006004888 Transcriptional regulator; Region: Rrf2; pfam02082 985006004889 recombination factor protein RarA; Reviewed; Region: PRK13342 985006004890 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 985006004891 Walker A motif; other site 985006004892 ATP binding site [chemical binding]; other site 985006004893 Walker B motif; other site 985006004894 arginine finger; other site 985006004895 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 985006004896 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 985006004897 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 985006004898 putative ATP binding site [chemical binding]; other site 985006004899 putative substrate interface [chemical binding]; other site 985006004900 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 985006004901 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 985006004902 dimer interface [polypeptide binding]; other site 985006004903 anticodon binding site; other site 985006004904 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 985006004905 homodimer interface [polypeptide binding]; other site 985006004906 motif 1; other site 985006004907 active site 985006004908 motif 2; other site 985006004909 GAD domain; Region: GAD; pfam02938 985006004910 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 985006004911 motif 3; other site 985006004912 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 985006004913 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 985006004914 dimer interface [polypeptide binding]; other site 985006004915 motif 1; other site 985006004916 active site 985006004917 motif 2; other site 985006004918 motif 3; other site 985006004919 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 985006004920 anticodon binding site; other site 985006004921 Bacterial SH3 domain homologues; Region: SH3b; smart00287 985006004922 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 985006004923 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 985006004924 active site 985006004925 metal binding site [ion binding]; metal-binding site 985006004926 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 985006004927 putative active site [active] 985006004928 dimerization interface [polypeptide binding]; other site 985006004929 putative tRNAtyr binding site [nucleotide binding]; other site 985006004930 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 985006004931 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985006004932 Zn2+ binding site [ion binding]; other site 985006004933 Mg2+ binding site [ion binding]; other site 985006004934 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 985006004935 synthetase active site [active] 985006004936 NTP binding site [chemical binding]; other site 985006004937 metal binding site [ion binding]; metal-binding site 985006004938 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 985006004939 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 985006004940 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985006004941 active site 985006004942 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 985006004943 DHH family; Region: DHH; pfam01368 985006004944 DHHA1 domain; Region: DHHA1; pfam02272 985006004945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 985006004946 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 985006004947 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 985006004948 Protein export membrane protein; Region: SecD_SecF; cl14618 985006004949 Protein export membrane protein; Region: SecD_SecF; pfam02355 985006004950 Preprotein translocase subunit; Region: YajC; pfam02699 985006004951 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 985006004952 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 985006004953 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 985006004954 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 985006004955 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 985006004956 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 985006004957 Walker A motif; other site 985006004958 ATP binding site [chemical binding]; other site 985006004959 Walker B motif; other site 985006004960 arginine finger; other site 985006004961 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 985006004962 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 985006004963 RuvA N terminal domain; Region: RuvA_N; pfam01330 985006004964 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 985006004965 ACT domain-containing protein [General function prediction only]; Region: PheB; COG4492 985006004966 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 985006004967 GTPase CgtA; Reviewed; Region: obgE; PRK12297 985006004968 GTP1/OBG; Region: GTP1_OBG; pfam01018 985006004969 Obg GTPase; Region: Obg; cd01898 985006004970 G1 box; other site 985006004971 GTP/Mg2+ binding site [chemical binding]; other site 985006004972 Switch I region; other site 985006004973 G2 box; other site 985006004974 G3 box; other site 985006004975 Switch II region; other site 985006004976 G4 box; other site 985006004977 G5 box; other site 985006004978 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 985006004979 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 985006004980 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 985006004981 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 985006004982 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 985006004983 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 985006004984 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 985006004985 rod shape-determining protein MreC; Region: MreC; pfam04085 985006004986 hypothetical protein; Reviewed; Region: PRK00024 985006004987 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 985006004988 MPN+ (JAMM) motif; other site 985006004989 Zinc-binding site [ion binding]; other site 985006004990 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 985006004991 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 985006004992 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 985006004993 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 985006004994 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985006004995 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985006004996 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 985006004997 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 985006004998 active site 985006004999 HIGH motif; other site 985006005000 nucleotide binding site [chemical binding]; other site 985006005001 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 985006005002 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 985006005003 active site 985006005004 KMSKS motif; other site 985006005005 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 985006005006 tRNA binding surface [nucleotide binding]; other site 985006005007 anticodon binding site; other site 985006005008 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 985006005009 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 985006005010 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 985006005011 Putative ammonia monooxygenase; Region: AmoA; pfam05145 985006005012 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 985006005013 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 985006005014 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 985006005015 inhibitor-cofactor binding pocket; inhibition site 985006005016 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006005017 catalytic residue [active] 985006005018 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 985006005019 dimer interface [polypeptide binding]; other site 985006005020 active site 985006005021 Schiff base residues; other site 985006005022 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 985006005023 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 985006005024 active site 985006005025 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 985006005026 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 985006005027 domain interfaces; other site 985006005028 active site 985006005029 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmC; COG0755 985006005030 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 985006005031 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 985006005032 tRNA; other site 985006005033 putative tRNA binding site [nucleotide binding]; other site 985006005034 putative NADP binding site [chemical binding]; other site 985006005035 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 985006005036 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 985006005037 G1 box; other site 985006005038 GTP/Mg2+ binding site [chemical binding]; other site 985006005039 Switch I region; other site 985006005040 G2 box; other site 985006005041 G3 box; other site 985006005042 Switch II region; other site 985006005043 G4 box; other site 985006005044 G5 box; other site 985006005045 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 985006005046 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 985006005047 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 985006005048 Walker A motif; other site 985006005049 ATP binding site [chemical binding]; other site 985006005050 Walker B motif; other site 985006005051 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 985006005052 trigger factor; Provisional; Region: tig; PRK01490 985006005053 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 985006005054 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 985006005055 Predicted phosphoesterase (MutT family) [General function prediction only]; Region: COG4112 985006005056 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 985006005057 23S rRNA binding site [nucleotide binding]; other site 985006005058 L21 binding site [polypeptide binding]; other site 985006005059 L13 binding site [polypeptide binding]; other site 985006005060 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 985006005061 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 985006005062 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 985006005063 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 985006005064 lysine transporter; Provisional; Region: PRK10836 985006005065 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 985006005066 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 985006005067 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 985006005068 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 985006005069 active site 985006005070 dimer interface [polypeptide binding]; other site 985006005071 motif 1; other site 985006005072 motif 2; other site 985006005073 motif 3; other site 985006005074 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 985006005075 anticodon binding site; other site 985006005076 primosomal protein DnaI; Reviewed; Region: PRK08939 985006005077 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 985006005078 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 985006005079 Walker A motif; other site 985006005080 ATP binding site [chemical binding]; other site 985006005081 Walker B motif; other site 985006005082 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 985006005083 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 985006005084 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 985006005085 ATP cone domain; Region: ATP-cone; pfam03477 985006005086 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 985006005087 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 985006005088 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 985006005089 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 985006005090 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 985006005091 CoA-binding site [chemical binding]; other site 985006005092 ATP-binding [chemical binding]; other site 985006005093 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 985006005094 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 985006005095 DNA binding site [nucleotide binding] 985006005096 catalytic residue [active] 985006005097 H2TH interface [polypeptide binding]; other site 985006005098 putative catalytic residues [active] 985006005099 turnover-facilitating residue; other site 985006005100 intercalation triad [nucleotide binding]; other site 985006005101 8OG recognition residue [nucleotide binding]; other site 985006005102 putative reading head residues; other site 985006005103 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 985006005104 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 985006005105 DNA polymerase I; Provisional; Region: PRK05755 985006005106 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 985006005107 active site 985006005108 metal binding site 1 [ion binding]; metal-binding site 985006005109 putative 5' ssDNA interaction site; other site 985006005110 metal binding site 3; metal-binding site 985006005111 metal binding site 2 [ion binding]; metal-binding site 985006005112 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 985006005113 putative DNA binding site [nucleotide binding]; other site 985006005114 putative metal binding site [ion binding]; other site 985006005115 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 985006005116 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 985006005117 active site 985006005118 DNA binding site [nucleotide binding] 985006005119 catalytic site [active] 985006005120 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 985006005121 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 985006005122 dimer interface [polypeptide binding]; other site 985006005123 phosphorylation site [posttranslational modification] 985006005124 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 985006005125 ATP binding site [chemical binding]; other site 985006005126 Mg2+ binding site [ion binding]; other site 985006005127 G-X-G motif; other site 985006005128 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985006005129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006005130 active site 985006005131 phosphorylation site [posttranslational modification] 985006005132 intermolecular recognition site; other site 985006005133 dimerization interface [polypeptide binding]; other site 985006005134 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 985006005135 DNA binding site [nucleotide binding] 985006005136 isocitrate dehydrogenase; Reviewed; Region: PRK07006 985006005137 isocitrate dehydrogenase; Validated; Region: PRK06451 985006005138 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 985006005139 dimer interface [polypeptide binding]; other site 985006005140 Citrate synthase; Region: Citrate_synt; pfam00285 985006005141 active site 985006005142 citrylCoA binding site [chemical binding]; other site 985006005143 oxalacetate/citrate binding site [chemical binding]; other site 985006005144 coenzyme A binding site [chemical binding]; other site 985006005145 catalytic triad [active] 985006005146 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 985006005147 pyruvate kinase; Provisional; Region: PRK06354 985006005148 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 985006005149 domain interfaces; other site 985006005150 active site 985006005151 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 985006005152 6-phosphofructokinase; Provisional; Region: PRK03202 985006005153 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 985006005154 active site 985006005155 ADP/pyrophosphate binding site [chemical binding]; other site 985006005156 dimerization interface [polypeptide binding]; other site 985006005157 allosteric effector site; other site 985006005158 fructose-1,6-bisphosphate binding site; other site 985006005159 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 985006005160 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 985006005161 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 985006005162 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 985006005163 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 985006005164 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985006005165 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 985006005166 putative NAD(P) binding site [chemical binding]; other site 985006005167 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 985006005168 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 985006005169 active site 985006005170 PHP Thumb interface [polypeptide binding]; other site 985006005171 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 985006005172 generic binding surface I; other site 985006005173 generic binding surface II; other site 985006005174 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 985006005175 DHH family; Region: DHH; pfam01368 985006005176 DHHA1 domain; Region: DHHA1; pfam02272 985006005178 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 985006005179 Ligand Binding Site [chemical binding]; other site 985006005180 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 985006005181 metal-dependent hydrolase; Provisional; Region: PRK00685 985006005182 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 985006005183 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 985006005184 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 985006005185 active site 985006005186 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 985006005187 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 985006005188 hexamer interface [polypeptide binding]; other site 985006005189 ligand binding site [chemical binding]; other site 985006005190 putative active site [active] 985006005191 NAD(P) binding site [chemical binding]; other site 985006005192 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 985006005193 Ligand Binding Site [chemical binding]; other site 985006005194 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 985006005195 propionate/acetate kinase; Provisional; Region: PRK12379 985006005196 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 985006005197 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 985006005198 S-adenosylmethionine binding site [chemical binding]; other site 985006005199 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 985006005200 dimer interface [polypeptide binding]; other site 985006005201 catalytic triad [active] 985006005202 peroxidatic and resolving cysteines [active] 985006005203 hypothetical protein; Provisional; Region: PRK10621 985006005204 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 985006005205 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 985006005206 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 985006005207 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 985006005208 Ligand Binding Site [chemical binding]; other site 985006005209 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 985006005210 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 985006005211 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985006005212 catalytic residue [active] 985006005213 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 985006005214 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 985006005215 GAF domain; Region: GAF_2; pfam13185 985006005216 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 985006005217 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 985006005218 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 985006005219 RNA binding surface [nucleotide binding]; other site 985006005220 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 985006005221 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 985006005222 active site 985006005223 catalytic site [active] 985006005224 OsmC-like protein; Region: OsmC; cl00767 985006005225 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 985006005226 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985006005227 catalytic residue [active] 985006005228 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 985006005229 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 985006005230 ligand binding site [chemical binding]; other site 985006005231 NAD binding site [chemical binding]; other site 985006005232 dimerization interface [polypeptide binding]; other site 985006005233 catalytic site [active] 985006005234 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 985006005235 putative L-serine binding site [chemical binding]; other site 985006005236 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 985006005237 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 985006005238 motif II; other site 985006005239 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 985006005240 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985006005241 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 985006005242 active site turn [active] 985006005243 phosphorylation site [posttranslational modification] 985006005244 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 985006005245 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 985006005246 putative acyl-acceptor binding pocket; other site 985006005247 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 985006005248 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 985006005249 protein binding site [polypeptide binding]; other site 985006005250 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 985006005251 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 985006005252 active site 985006005253 HIGH motif; other site 985006005254 dimer interface [polypeptide binding]; other site 985006005255 KMSKS motif; other site 985006005256 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 985006005257 RNA binding surface [nucleotide binding]; other site 985006005258 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 985006005259 Transglycosylase; Region: Transgly; pfam00912 985006005260 haptoglobin-binding heme uptake protein HarA; Region: IsdH_HarA; TIGR03658 985006005261 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 985006005262 NEAr Transporter domain; Region: NEAT; smart00725 985006005263 NEAr Transporter domain; Region: NEAT; smart00725 985006005264 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985006005265 heme-binding site [chemical binding]; other site 985006005266 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 985006005267 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 985006005268 Potassium binding sites [ion binding]; other site 985006005269 Cesium cation binding sites [ion binding]; other site 985006005270 acetyl-CoA synthetase; Provisional; Region: PRK04319 985006005271 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 985006005272 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 985006005273 active site 985006005274 acyl-activating enzyme (AAE) consensus motif; other site 985006005275 putative CoA binding site [chemical binding]; other site 985006005276 AMP binding site [chemical binding]; other site 985006005277 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 985006005278 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 985006005279 active site 985006005280 Zn binding site [ion binding]; other site 985006005281 catabolite control protein A; Region: ccpA; TIGR01481 985006005282 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985006005283 DNA binding site [nucleotide binding] 985006005284 domain linker motif; other site 985006005285 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 985006005286 dimerization interface [polypeptide binding]; other site 985006005287 effector binding site; other site 985006005288 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 985006005289 Chorismate mutase type II; Region: CM_2; cl00693 985006005290 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 985006005291 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 985006005292 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 985006005293 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 985006005294 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985006005295 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985006005296 Signal peptide peptidase; Region: Peptidase_A22B; cl01342 985006005297 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 985006005298 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 985006005299 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 985006005300 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 985006005301 putative tRNA-binding site [nucleotide binding]; other site 985006005302 hypothetical protein; Provisional; Region: PRK13668 985006005303 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 985006005304 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 985006005305 catalytic residues [active] 985006005306 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 985006005307 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 985006005308 oligomer interface [polypeptide binding]; other site 985006005309 active site 985006005310 metal binding site [ion binding]; metal-binding site 985006005311 Predicted small secreted protein [Function unknown]; Region: COG5584 985006005312 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 985006005313 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 985006005314 S-adenosylmethionine binding site [chemical binding]; other site 985006005315 Phosphotransferase enzyme family; Region: APH; pfam01636 985006005316 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 985006005317 active site 985006005318 substrate binding site [chemical binding]; other site 985006005319 ATP binding site [chemical binding]; other site 985006005320 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 985006005321 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 985006005322 homodimer interface [polypeptide binding]; other site 985006005323 substrate-cofactor binding pocket; other site 985006005324 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006005325 catalytic residue [active] 985006005326 dipeptidase PepV; Reviewed; Region: PRK07318 985006005327 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 985006005328 active site 985006005329 metal binding site [ion binding]; metal-binding site 985006005330 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 985006005331 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 985006005332 RNA binding surface [nucleotide binding]; other site 985006005333 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 985006005334 active site 985006005335 uracil binding [chemical binding]; other site 985006005336 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 985006005337 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 985006005338 HI0933-like protein; Region: HI0933_like; pfam03486 985006005339 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 985006005340 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 985006005341 SasC/Mrp/FmtB intercellular aggregation domain; Region: SasC_Mrp_aggreg; TIGR04263 985006005342 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005343 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005344 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005345 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005346 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005347 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005348 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005349 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005350 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005351 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005352 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005353 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005354 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005355 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005356 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006005357 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 985006005358 active site residue [active] 985006005359 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 985006005360 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 985006005361 HIGH motif; other site 985006005362 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 985006005363 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 985006005364 active site 985006005365 KMSKS motif; other site 985006005366 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 985006005367 tRNA binding surface [nucleotide binding]; other site 985006005368 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 985006005369 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985006005370 putative substrate translocation pore; other site 985006005371 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 985006005372 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 985006005373 S-adenosylmethionine binding site [chemical binding]; other site 985006005374 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 985006005375 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 985006005376 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985006005377 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 985006005378 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 985006005379 homopentamer interface [polypeptide binding]; other site 985006005380 active site 985006005381 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 985006005382 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 985006005383 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 985006005384 dimerization interface [polypeptide binding]; other site 985006005385 active site 985006005386 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 985006005387 Lumazine binding domain; Region: Lum_binding; pfam00677 985006005388 Lumazine binding domain; Region: Lum_binding; pfam00677 985006005389 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 985006005390 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 985006005391 catalytic motif [active] 985006005392 Zn binding site [ion binding]; other site 985006005393 RibD C-terminal domain; Region: RibD_C; cl17279 985006005394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 985006005395 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 985006005396 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 985006005397 arsenical pump membrane protein; Provisional; Region: PRK15445 985006005398 transmembrane helices; other site 985006005399 Low molecular weight phosphatase family; Region: LMWPc; cd00115 985006005400 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 985006005401 active site 985006005402 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 985006005403 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 985006005404 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 985006005405 CAAX protease self-immunity; Region: Abi; pfam02517 985006005406 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 985006005407 active site 985006005408 intersubunit interactions; other site 985006005409 catalytic residue [active] 985006005410 camphor resistance protein CrcB; Provisional; Region: PRK14201 985006005411 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 985006005412 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 985006005413 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985006005414 active site 985006005415 catalytic tetrad [active] 985006005416 S-adenosylmethionine synthetase; Validated; Region: PRK05250 985006005417 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 985006005418 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 985006005419 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 985006005420 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 985006005421 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 985006005422 active site 985006005423 substrate-binding site [chemical binding]; other site 985006005424 metal-binding site [ion binding] 985006005425 ATP binding site [chemical binding]; other site 985006005426 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 985006005427 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 985006005428 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 985006005429 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_8; cd04665 985006005430 nudix motif; other site 985006005431 Haemolytic domain; Region: Haemolytic; pfam01809 985006005432 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 985006005433 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 985006005434 metal binding site [ion binding]; metal-binding site 985006005435 substrate binding pocket [chemical binding]; other site 985006005436 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 985006005437 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 985006005438 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 985006005439 acyl-activating enzyme (AAE) consensus motif; other site 985006005440 putative AMP binding site [chemical binding]; other site 985006005441 putative active site [active] 985006005442 putative CoA binding site [chemical binding]; other site 985006005443 Excalibur calcium-binding domain; Region: Excalibur; smart00894 985006005444 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 985006005445 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 985006005446 Genomic island niSa-beta 985006005447 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 985006005448 substrate binding site [chemical binding]; other site 985006005449 catalytic residues [active] 985006005450 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 985006005451 Peptidase family M23; Region: Peptidase_M23; pfam01551 985006005452 CDS contains a frameshift around codon 244 985006005453 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 985006005454 HsdM N-terminal domain; Region: HsdM_N; pfam12161 985006005455 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 985006005456 S-adenosylmethionine binding site [chemical binding]; other site 985006005457 CDS contains a nonsense mutation (ochre) after codon 168 985006005458 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 985006005459 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 985006005460 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 985006005461 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 985006005462 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 985006005463 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 985006005464 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 985006005465 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 985006005466 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 985006005467 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 985006005468 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 985006005469 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 985006005470 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006005471 Walker A/P-loop; other site 985006005472 ATP binding site [chemical binding]; other site 985006005473 Q-loop/lid; other site 985006005474 ABC transporter signature motif; other site 985006005475 Walker B; other site 985006005476 D-loop; other site 985006005477 H-loop/switch region; other site 985006005478 Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases; Region: Peptidases_S8_Lantibiotic_specific_protease; cd07482 985006005479 active site 985006005480 catalytic triad [active] 985006005481 Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]; Region: Dfp; COG0452 985006005482 Flavoprotein; Region: Flavoprotein; pfam02441 985006005483 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 985006005484 LanC is the cyclase enzyme of the lanthionine synthetase. Lanthinoine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as precursor peptides and then post-translationally modified to contain thioether cross-links...; Region: LanC; cd04793 985006005485 active site 985006005486 zinc binding site [ion binding]; other site 985006005487 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 985006005488 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 985006005489 thiopeptide-type bacteriocin biosynthesis domain; Region: thiopep_ocin; TIGR03891 985006005490 lantibiotic, gallidermin/nisin family; Region: lantibio_gallid; TIGR03731 985006005491 lantibiotic, gallidermin/nisin family; Region: lantibio_gallid; TIGR03731 985006005492 beta-channel forming cytolysin; Region: hlyII; TIGR01002 985006005493 Leukocidin/Hemolysin toxin family; Region: Leukocidin; pfam07968 985006005494 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 985006005495 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 985006005496 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 985006005497 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 985006005498 active site 985006005499 DNA binding site [nucleotide binding] 985006005500 Int/Topo IB signature motif; other site 985006005501 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 985006005502 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 985006005503 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 985006005504 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 985006005505 ferrochelatase; Provisional; Region: PRK12435 985006005506 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 985006005507 C-terminal domain interface [polypeptide binding]; other site 985006005508 active site 985006005509 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 985006005510 active site 985006005511 N-terminal domain interface [polypeptide binding]; other site 985006005512 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 985006005513 substrate binding site [chemical binding]; other site 985006005514 active site 985006005515 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 985006005516 Predicted ABC-type exoprotein transport system, permease component [Intracellular trafficking and secretion]; Region: EcsB; COG4473 985006005517 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 985006005518 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 985006005519 Walker A/P-loop; other site 985006005520 ATP binding site [chemical binding]; other site 985006005521 Q-loop/lid; other site 985006005522 ABC transporter signature motif; other site 985006005523 Walker B; other site 985006005524 D-loop; other site 985006005525 H-loop/switch region; other site 985006005526 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 985006005527 HIT family signature motif; other site 985006005528 catalytic residue [active] 985006005529 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 985006005530 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 985006005531 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 985006005532 SurA N-terminal domain; Region: SurA_N_3; cl07813 985006005533 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 985006005534 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 985006005535 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 985006005536 generic binding surface II; other site 985006005537 generic binding surface I; other site 985006005538 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985006005539 Zn2+ binding site [ion binding]; other site 985006005540 Mg2+ binding site [ion binding]; other site 985006005541 Uncharacterized conserved protein [Function unknown]; Region: COG4717 985006005542 P-loop containing region of AAA domain; Region: AAA_29; cl17516 985006005543 Plant specific eukaryotic initiation factor 4B; Region: eIF-4B; pfam06273 985006005544 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 985006005545 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 985006005546 active site 985006005547 metal binding site [ion binding]; metal-binding site 985006005548 DNA binding site [nucleotide binding] 985006005549 hypothetical protein; Provisional; Region: PRK13676 985006005550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 985006005551 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985006005552 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 985006005553 non-specific DNA binding site [nucleotide binding]; other site 985006005554 salt bridge; other site 985006005555 sequence-specific DNA binding site [nucleotide binding]; other site 985006005556 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985006005557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006005558 active site 985006005559 phosphorylation site [posttranslational modification] 985006005560 intermolecular recognition site; other site 985006005561 dimerization interface [polypeptide binding]; other site 985006005562 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 985006005563 DNA binding residues [nucleotide binding] 985006005564 dimerization interface [polypeptide binding]; other site 985006005565 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 985006005566 GAF domain; Region: GAF_3; pfam13492 985006005567 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985006005568 Histidine kinase; Region: HisKA_3; pfam07730 985006005569 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 985006005570 ATP binding site [chemical binding]; other site 985006005571 Mg2+ binding site [ion binding]; other site 985006005572 G-X-G motif; other site 985006005573 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 985006005574 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 985006005575 active site 985006005576 fumarate hydratase; Reviewed; Region: fumC; PRK00485 985006005577 Class II fumarases; Region: Fumarase_classII; cd01362 985006005578 active site 985006005579 tetramer interface [polypeptide binding]; other site 985006005580 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 985006005581 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 985006005582 active site 985006005583 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 985006005584 epoxyqueuosine reductase; Region: TIGR00276 985006005585 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 985006005586 HEAT repeats; Region: HEAT_2; pfam13646 985006005587 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985006005588 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 985006005589 Walker A/P-loop; other site 985006005590 ATP binding site [chemical binding]; other site 985006005591 Q-loop/lid; other site 985006005592 ABC transporter signature motif; other site 985006005593 Walker B; other site 985006005594 D-loop; other site 985006005595 H-loop/switch region; other site 985006005596 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 985006005597 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985006005598 substrate binding pocket [chemical binding]; other site 985006005599 membrane-bound complex binding site; other site 985006005600 hinge residues; other site 985006005601 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 985006005602 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 985006005603 dimer interface [polypeptide binding]; other site 985006005604 conserved gate region; other site 985006005605 putative PBP binding loops; other site 985006005606 ABC-ATPase subunit interface; other site 985006005607 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 985006005608 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 985006005609 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 985006005610 metal binding site 2 [ion binding]; metal-binding site 985006005611 putative DNA binding helix; other site 985006005612 metal binding site 1 [ion binding]; metal-binding site 985006005613 dimer interface [polypeptide binding]; other site 985006005614 structural Zn2+ binding site [ion binding]; other site 985006005615 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 985006005616 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 985006005617 NAD binding site [chemical binding]; other site 985006005618 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 985006005619 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 985006005620 catalytic triad [active] 985006005621 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 985006005622 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 985006005623 inhibitor-cofactor binding pocket; inhibition site 985006005624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006005625 catalytic residue [active] 985006005626 Predicted membrane protein [Function unknown]; Region: COG4129 985006005627 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 985006005628 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985006005629 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985006005630 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 985006005631 Walker A/P-loop; other site 985006005632 ATP binding site [chemical binding]; other site 985006005633 Q-loop/lid; other site 985006005634 ABC transporter signature motif; other site 985006005635 Walker B; other site 985006005636 D-loop; other site 985006005637 H-loop/switch region; other site 985006005638 hypothetical protein; Provisional; Region: PRK13662 985006005639 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 985006005640 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 985006005641 minor groove reading motif; other site 985006005642 helix-hairpin-helix signature motif; other site 985006005643 substrate binding pocket [chemical binding]; other site 985006005644 active site 985006005645 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 985006005646 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 985006005647 DNA binding and oxoG recognition site [nucleotide binding] 985006005648 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 985006005649 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 985006005650 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006005651 Walker A/P-loop; other site 985006005652 ATP binding site [chemical binding]; other site 985006005653 Q-loop/lid; other site 985006005654 ABC transporter signature motif; other site 985006005655 Walker B; other site 985006005656 H-loop/switch region; other site 985006005657 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 985006005658 recombination regulator RecX; Provisional; Region: recX; PRK14135 985006005659 glycosyltransferase; Provisional; Region: PRK13481 985006005660 Transglycosylase; Region: Transgly; pfam00912 985006005661 intracellular protease, PfpI family; Region: PfpI; TIGR01382 985006005662 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 985006005663 proposed catalytic triad [active] 985006005664 conserved cys residue [active] 985006005665 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 985006005666 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 985006005667 FeS/SAM binding site; other site 985006005668 YfkB-like domain; Region: YfkB; pfam08756 985006005669 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 985006005670 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 985006005671 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 985006005672 Protein of unknown function (DUF1128); Region: DUF1128; cl11553 985006005673 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 985006005674 Low molecular weight phosphatase family; Region: LMWPc; cd00115 985006005675 active site 985006005676 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 985006005677 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985006005678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006005679 active site 985006005680 phosphorylation site [posttranslational modification] 985006005681 intermolecular recognition site; other site 985006005682 dimerization interface [polypeptide binding]; other site 985006005683 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 985006005684 DNA binding residues [nucleotide binding] 985006005685 dimerization interface [polypeptide binding]; other site 985006005686 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985006005687 Histidine kinase; Region: HisKA_3; pfam07730 985006005688 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 985006005689 ATP binding site [chemical binding]; other site 985006005690 Mg2+ binding site [ion binding]; other site 985006005691 G-X-G motif; other site 985006005692 Predicted membrane protein [Function unknown]; Region: COG4758 985006005693 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 985006005694 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 985006005695 active site 985006005696 Predicted membrane protein [Function unknown]; Region: COG4129 985006005697 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 985006005698 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 985006005699 catalytic triad [active] 985006005700 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 985006005701 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985006005702 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 985006005703 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 985006005704 Ferritin-like domain; Region: Ferritin; pfam00210 985006005705 ferroxidase diiron center [ion binding]; other site 985006005706 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 985006005707 active site 985006005708 catalytic site [active] 985006005709 substrate binding site [chemical binding]; other site 985006005710 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 985006005711 active site 985006005712 DNA polymerase IV; Validated; Region: PRK02406 985006005713 DNA binding site [nucleotide binding] 985006005714 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 985006005715 TRAM domain; Region: TRAM; cl01282 985006005716 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 985006005717 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 985006005718 S-adenosylmethionine binding site [chemical binding]; other site 985006005719 putative lipid kinase; Reviewed; Region: PRK13337 985006005720 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 985006005721 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl17465 985006005722 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 985006005723 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 985006005724 GatB domain; Region: GatB_Yqey; pfam02637 985006005725 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 985006005726 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 985006005727 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 985006005728 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 985006005729 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 985006005730 Na binding site [ion binding]; other site 985006005731 Predicted transcriptional regulators [Transcription]; Region: COG1733 985006005732 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 985006005733 dimerization interface [polypeptide binding]; other site 985006005734 putative Zn2+ binding site [ion binding]; other site 985006005735 putative DNA binding site [nucleotide binding]; other site 985006005736 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 985006005737 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 985006005738 FMN binding site [chemical binding]; other site 985006005739 substrate binding site [chemical binding]; other site 985006005740 putative catalytic residue [active] 985006005741 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 985006005742 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 985006005743 putative dimer interface [polypeptide binding]; other site 985006005744 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 985006005745 putative dimer interface [polypeptide binding]; other site 985006005746 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 985006005747 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 985006005748 nucleotide binding pocket [chemical binding]; other site 985006005749 K-X-D-G motif; other site 985006005750 catalytic site [active] 985006005751 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 985006005752 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 985006005753 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 985006005754 Dimer interface [polypeptide binding]; other site 985006005755 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 985006005756 Part of AAA domain; Region: AAA_19; pfam13245 985006005757 Family description; Region: UvrD_C_2; pfam13538 985006005758 PcrB family; Region: PcrB; pfam01884 985006005759 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 985006005760 substrate binding site [chemical binding]; other site 985006005761 putative active site [active] 985006005762 dimer interface [polypeptide binding]; other site 985006005763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 985006005764 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 985006005765 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 985006005766 tetramer interface [polypeptide binding]; other site 985006005767 active site 985006005768 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 985006005769 Staphopain peptidase C47; Region: Peptidase_C47; pfam05543 985006005770 NETI protein; Region: NETI; pfam14044 985006005771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4843 985006005772 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 985006005773 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 985006005774 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 985006005775 homodimer interface [polypeptide binding]; other site 985006005776 NAD binding pocket [chemical binding]; other site 985006005777 ATP binding pocket [chemical binding]; other site 985006005778 Mg binding site [ion binding]; other site 985006005779 active-site loop [active] 985006005780 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 985006005781 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 985006005782 active site 985006005783 Nitric oxide synthase (NOS) prokaryotic oxygenase domain. NOS produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N...; Region: NOS_oxygenase_prok; cd00794 985006005784 active site 985006005785 dimer interface [polypeptide binding]; other site 985006005786 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 985006005787 Prephenate dehydratase; Region: PDT; pfam00800 985006005788 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 985006005789 putative L-Phe binding site [chemical binding]; other site 985006005790 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 985006005791 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 985006005792 transmembrane helices; other site 985006005793 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 985006005794 Isochorismatase family; Region: Isochorismatase; pfam00857 985006005795 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 985006005796 catalytic triad [active] 985006005797 conserved cis-peptide bond; other site 985006005798 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 985006005799 DHH family; Region: DHH; pfam01368 985006005800 DHHA2 domain; Region: DHHA2; pfam02833 985006005801 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 985006005802 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 985006005803 NAD(P) binding site [chemical binding]; other site 985006005804 catalytic residues [active] 985006005805 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 985006005806 YolD-like protein; Region: YolD; pfam08863 985006005807 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 985006005808 active site 985006005809 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 985006005810 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 985006005811 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 985006005812 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 985006005813 Thiol-disulfide isomerase and thioredoxins [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: TrxA; COG0526 985006005814 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985006005815 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 985006005816 Walker A/P-loop; other site 985006005817 ATP binding site [chemical binding]; other site 985006005818 Q-loop/lid; other site 985006005819 ABC transporter signature motif; other site 985006005820 Walker B; other site 985006005821 D-loop; other site 985006005822 H-loop/switch region; other site 985006005823 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 985006005824 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985006005825 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 985006005826 Walker A/P-loop; other site 985006005827 ATP binding site [chemical binding]; other site 985006005828 Q-loop/lid; other site 985006005829 ABC transporter signature motif; other site 985006005830 Walker B; other site 985006005831 D-loop; other site 985006005832 H-loop/switch region; other site 985006005833 Predicted transcriptional regulators [Transcription]; Region: COG1725 985006005834 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985006005835 DNA-binding site [nucleotide binding]; DNA binding site 985006005836 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 985006005837 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 985006005838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006005839 homodimer interface [polypeptide binding]; other site 985006005840 catalytic residue [active] 985006005841 MAP domain; Region: MAP; pfam03642 985006005842 MAP domain; Region: MAP; pfam03642 985006005843 MAP domain; Region: MAP; pfam03642 985006005844 MAP domain; Region: MAP; pfam03642 985006005845 MAP domain; Region: MAP; pfam03642 985006005846 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 985006005847 putative catalytic site [active] 985006005848 metal binding site A [ion binding]; metal-binding site 985006005849 phosphate binding site [ion binding]; other site 985006005850 metal binding site C [ion binding]; metal-binding site 985006005851 metal binding site B [ion binding]; metal-binding site 985006005852 Leukocidin/Hemolysin toxin family; Region: Leukocidin; pfam07968 985006005854 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 985006005855 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 985006005856 metal binding site [ion binding]; metal-binding site 985006005857 dimer interface [polypeptide binding]; other site 985006005858 EamA-like transporter family; Region: EamA; pfam00892 985006005859 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 985006005860 EamA-like transporter family; Region: EamA; pfam00892 985006005861 5-aminolevulinate synthase; Validated; Region: PRK09064 985006005862 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 985006005863 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985006005864 catalytic residue [active] 985006005865 Cation transport protein; Region: TrkH; cl17365 985006005866 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 985006005867 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 985006005868 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 985006005869 ring oligomerisation interface [polypeptide binding]; other site 985006005870 ATP/Mg binding site [chemical binding]; other site 985006005871 stacking interactions; other site 985006005872 hinge regions; other site 985006005873 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 985006005874 oligomerisation interface [polypeptide binding]; other site 985006005875 mobile loop; other site 985006005876 roof hairpin; other site 985006005877 CAAX protease self-immunity; Region: Abi; pfam02517 985006005878 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 985006005879 dimer interface [polypeptide binding]; other site 985006005880 FMN binding site [chemical binding]; other site 985006005881 Predicted amidohydrolase [General function prediction only]; Region: COG0388 985006005882 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 985006005883 putative active site [active] 985006005884 catalytic triad [active] 985006005885 putative dimer interface [polypeptide binding]; other site 985006005886 CDS contains a frameshift after codon 8. Frameshift occurs at a poly T hexamer 985006005887 Membrane protein putatively involved in post-translational modification of the autoinducing quorum-sensing peptide [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Transcription]; Region: AgrB; COG4512 985006005888 Staphylococcal AgrD protein; Region: AgrD; pfam05931 985006005889 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985006005890 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 985006005891 Mg2+ binding site [ion binding]; other site 985006005892 G-X-G motif; other site 985006005893 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 985006005894 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006005895 active site 985006005896 phosphorylation site [posttranslational modification] 985006005897 intermolecular recognition site; other site 985006005898 dimerization interface [polypeptide binding]; other site 985006005899 LytTr DNA-binding domain; Region: LytTR; pfam04397 985006005900 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 985006005901 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 985006005902 putative substrate binding site [chemical binding]; other site 985006005903 putative ATP binding site [chemical binding]; other site 985006005904 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 985006005905 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 985006005906 substrate binding [chemical binding]; other site 985006005907 active site 985006005908 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 985006005909 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985006005910 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985006005911 DNA binding site [nucleotide binding] 985006005912 domain linker motif; other site 985006005913 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 985006005914 dimerization interface [polypeptide binding]; other site 985006005915 ligand binding site [chemical binding]; other site 985006005916 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 985006005917 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 985006005918 CPxP motif; other site 985006005919 Predicted transporter component [General function prediction only]; Region: COG2391 985006005920 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 985006005921 Sulphur transport; Region: Sulf_transp; pfam04143 985006005922 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 985006005923 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 985006005924 CoA binding domain; Region: CoA_binding; pfam02629 985006005925 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 985006005926 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985006005927 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985006005928 ABC transporter; Region: ABC_tran_2; pfam12848 985006005929 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985006005930 Probable gene remnant 985006005931 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 985006005932 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006005933 Walker A/P-loop; other site 985006005934 ATP binding site [chemical binding]; other site 985006005935 Q-loop/lid; other site 985006005936 ABC transporter signature motif; other site 985006005937 Walker B; other site 985006005938 D-loop; other site 985006005939 H-loop/switch region; other site 985006005940 UGMP family protein; Validated; Region: PRK09604 985006005941 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 985006005942 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 985006005943 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006005944 Coenzyme A binding pocket [chemical binding]; other site 985006005945 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 985006005946 Glycoprotease family; Region: Peptidase_M22; pfam00814 985006005947 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 985006005948 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 985006005949 6-phosphogluconate dehydratase; Region: edd; TIGR01196 985006005950 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 985006005951 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 985006005952 PYR/PP interface [polypeptide binding]; other site 985006005953 dimer interface [polypeptide binding]; other site 985006005954 TPP binding site [chemical binding]; other site 985006005955 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 985006005956 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 985006005957 TPP-binding site [chemical binding]; other site 985006005958 dimer interface [polypeptide binding]; other site 985006005960 ketol-acid reductoisomerase; Provisional; Region: PRK05479 985006005961 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 985006005962 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 985006005963 2-isopropylmalate synthase; Validated; Region: PRK00915 985006005964 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 985006005965 active site 985006005966 catalytic residues [active] 985006005967 metal binding site [ion binding]; metal-binding site 985006005968 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 985006005969 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 985006005970 tartrate dehydrogenase; Region: TTC; TIGR02089 985006005971 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 985006005972 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 985006005973 substrate binding site [chemical binding]; other site 985006005974 ligand binding site [chemical binding]; other site 985006005975 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 985006005976 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 985006005977 substrate binding site [chemical binding]; other site 985006005978 threonine dehydratase; Validated; Region: PRK08639 985006005979 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 985006005980 tetramer interface [polypeptide binding]; other site 985006005981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006005982 catalytic residue [active] 985006005983 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 985006005984 putative Ile/Val binding site [chemical binding]; other site 985006005985 hypothetical protein; Provisional; Region: PRK04351 985006005986 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 985006005987 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 985006005988 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 985006005989 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 985006005990 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 985006005991 RNA binding site [nucleotide binding]; other site 985006005992 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 985006005993 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985006005994 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 985006005995 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 985006005996 DNA binding residues [nucleotide binding] 985006005997 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 985006005998 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 985006005999 ATP binding site [chemical binding]; other site 985006006000 Mg2+ binding site [ion binding]; other site 985006006001 G-X-G motif; other site 985006006002 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 985006006003 anti sigma factor interaction site; other site 985006006004 regulatory phosphorylation site [posttranslational modification]; other site 985006006005 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 985006006006 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 985006006007 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 985006006008 PemK-like protein; Region: PemK; pfam02452 985006006009 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 985006006010 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 985006006011 active site 985006006012 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985006006013 dimer interface [polypeptide binding]; other site 985006006014 substrate binding site [chemical binding]; other site 985006006015 catalytic residues [active] 985006006016 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 985006006017 Uncharacterized conserved protein [Function unknown]; Region: COG3402 985006006018 Predicted membrane protein [Function unknown]; Region: COG3428 985006006019 Bacterial PH domain; Region: DUF304; pfam03703 985006006020 Bacterial PH domain; Region: DUF304; pfam03703 985006006021 Bacterial PH domain; Region: DUF304; cl01348 985006006022 potassium-transporting ATPase subunit C; Provisional; Region: PRK13998 985006006023 High-affinity K+ transport system, ATPase chain B [Inorganic ion transport and metabolism]; Region: KdpB; COG2216 985006006024 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 985006006025 Soluble P-type ATPase [General function prediction only]; Region: COG4087 985006006026 K+-transporting ATPase, A chain [Inorganic ion transport and metabolism]; Region: KdpA; COG2060 985006006027 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 985006006028 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 985006006029 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 985006006030 Ligand Binding Site [chemical binding]; other site 985006006031 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 985006006032 dimer interface [polypeptide binding]; other site 985006006033 phosphorylation site [posttranslational modification] 985006006034 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 985006006035 ATP binding site [chemical binding]; other site 985006006036 Mg2+ binding site [ion binding]; other site 985006006037 G-X-G motif; other site 985006006038 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985006006039 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006006040 active site 985006006041 phosphorylation site [posttranslational modification] 985006006042 intermolecular recognition site; other site 985006006043 dimerization interface [polypeptide binding]; other site 985006006044 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 985006006045 DNA binding site [nucleotide binding] 985006006046 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 985006006047 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 985006006048 ATP binding site [chemical binding]; other site 985006006049 Mg++ binding site [ion binding]; other site 985006006050 motif III; other site 985006006051 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 985006006052 nucleotide binding region [chemical binding]; other site 985006006053 ATP-binding site [chemical binding]; other site 985006006054 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 985006006055 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 985006006056 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985006006057 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985006006058 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 985006006059 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 985006006060 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 985006006061 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 985006006062 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 985006006063 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 985006006064 putative homodimer interface [polypeptide binding]; other site 985006006065 putative homotetramer interface [polypeptide binding]; other site 985006006066 allosteric switch controlling residues; other site 985006006067 putative metal binding site [ion binding]; other site 985006006068 putative homodimer-homodimer interface [polypeptide binding]; other site 985006006069 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 985006006070 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 985006006071 putative active site [active] 985006006072 catalytic site [active] 985006006073 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 985006006074 putative active site [active] 985006006075 catalytic site [active] 985006006076 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 985006006077 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985006006078 Zn2+ binding site [ion binding]; other site 985006006079 Mg2+ binding site [ion binding]; other site 985006006080 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 985006006081 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 985006006082 thiamine phosphate binding site [chemical binding]; other site 985006006083 active site 985006006084 pyrophosphate binding site [ion binding]; other site 985006006085 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 985006006086 substrate binding site [chemical binding]; other site 985006006087 multimerization interface [polypeptide binding]; other site 985006006088 ATP binding site [chemical binding]; other site 985006006089 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 985006006090 dimer interface [polypeptide binding]; other site 985006006091 substrate binding site [chemical binding]; other site 985006006092 ATP binding site [chemical binding]; other site 985006006093 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 985006006094 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 985006006095 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 985006006096 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 985006006097 dimer interface [polypeptide binding]; other site 985006006098 ssDNA binding site [nucleotide binding]; other site 985006006099 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985006006100 YwpF-like protein; Region: YwpF; pfam14183 985006006101 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 985006006102 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 985006006103 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 985006006104 hinge; other site 985006006105 active site 985006006106 Predicted membrane protein [Function unknown]; Region: COG4836 985006006107 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK14735 985006006108 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 985006006109 gamma subunit interface [polypeptide binding]; other site 985006006110 epsilon subunit interface [polypeptide binding]; other site 985006006111 LBP interface [polypeptide binding]; other site 985006006112 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 985006006113 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 985006006114 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 985006006115 alpha subunit interaction interface [polypeptide binding]; other site 985006006116 Walker A motif; other site 985006006117 ATP binding site [chemical binding]; other site 985006006118 Walker B motif; other site 985006006119 inhibitor binding site; inhibition site 985006006120 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 985006006121 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 985006006122 core domain interface [polypeptide binding]; other site 985006006123 delta subunit interface [polypeptide binding]; other site 985006006124 epsilon subunit interface [polypeptide binding]; other site 985006006125 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 985006006126 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 985006006127 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 985006006128 beta subunit interaction interface [polypeptide binding]; other site 985006006129 Walker A motif; other site 985006006130 ATP binding site [chemical binding]; other site 985006006131 Walker B motif; other site 985006006132 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 985006006133 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 985006006134 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 985006006135 F0F1 ATP synthase subunit B; Provisional; Region: PRK13453 985006006136 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 985006006137 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 985006006138 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 985006006139 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 985006006140 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 985006006141 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 985006006142 active site 985006006143 homodimer interface [polypeptide binding]; other site 985006006144 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985006006145 active site 985006006146 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 985006006147 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 985006006148 dimer interface [polypeptide binding]; other site 985006006149 active site 985006006150 glycine-pyridoxal phosphate binding site [chemical binding]; other site 985006006151 folate binding site [chemical binding]; other site 985006006152 hypothetical protein; Provisional; Region: PRK13690 985006006153 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 985006006154 Low molecular weight phosphatase family; Region: LMWPc; cd00115 985006006155 active site 985006006156 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 985006006157 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 985006006158 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 985006006159 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 985006006160 S-adenosylmethionine binding site [chemical binding]; other site 985006006161 peptide chain release factor 1; Validated; Region: prfA; PRK00591 985006006162 This domain is found in peptide chain release factors; Region: PCRF; smart00937 985006006163 RF-1 domain; Region: RF-1; pfam00472 985006006164 thymidine kinase; Provisional; Region: PRK04296 985006006165 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 985006006166 transcription termination factor Rho; Provisional; Region: rho; PRK09376 985006006167 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 985006006168 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 985006006169 RNA binding site [nucleotide binding]; other site 985006006170 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 985006006171 multimer interface [polypeptide binding]; other site 985006006172 Walker A motif; other site 985006006173 ATP binding site [chemical binding]; other site 985006006174 Walker B motif; other site 985006006175 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 985006006176 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 985006006177 NAD binding site [chemical binding]; other site 985006006178 catalytic residues [active] 985006006179 Predicted transcriptional regulators [Transcription]; Region: COG1733 985006006180 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985006006181 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 985006006182 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 985006006183 hinge; other site 985006006184 active site 985006006185 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 985006006186 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 985006006187 intersubunit interface [polypeptide binding]; other site 985006006188 active site 985006006189 zinc binding site [ion binding]; other site 985006006190 Na+ binding site [ion binding]; other site 985006006191 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 985006006192 CTP synthetase; Validated; Region: pyrG; PRK05380 985006006193 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 985006006194 Catalytic site [active] 985006006195 active site 985006006196 UTP binding site [chemical binding]; other site 985006006197 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 985006006198 active site 985006006199 putative oxyanion hole; other site 985006006200 catalytic triad [active] 985006006201 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 985006006202 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985006006203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006006204 Coenzyme A binding pocket [chemical binding]; other site 985006006205 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985006006206 Coenzyme A binding pocket [chemical binding]; other site 985006006207 pantothenate kinase; Provisional; Region: PRK13317 985006006208 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 985006006209 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 985006006210 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 985006006211 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985006006212 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 985006006213 metal binding site [ion binding]; metal-binding site 985006006214 S-ribosylhomocysteinase; Provisional; Region: PRK02260 985006006215 Predicted membrane protein [Function unknown]; Region: COG4270 985006006216 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 985006006217 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 985006006218 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 985006006219 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 985006006220 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 985006006221 intersubunit interface [polypeptide binding]; other site 985006006222 active site 985006006223 catalytic residue [active] 985006006224 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 985006006225 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 985006006226 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 985006006227 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 985006006228 dimerization interface [polypeptide binding]; other site 985006006229 DPS ferroxidase diiron center [ion binding]; other site 985006006230 ion pore; other site 985006006231 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 985006006232 EVE domain; Region: EVE; cl00728 985006006233 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 985006006234 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 985006006235 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 985006006236 NADH(P)-binding; Region: NAD_binding_10; pfam13460 985006006237 NAD(P) binding site [chemical binding]; other site 985006006238 putative active site [active] 985006006239 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 985006006240 dimerization interface [polypeptide binding]; other site 985006006241 putative DNA binding site [nucleotide binding]; other site 985006006242 putative Zn2+ binding site [ion binding]; other site 985006006243 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 985006006244 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 985006006245 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 985006006246 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 985006006247 active site 985006006248 motif I; other site 985006006249 motif II; other site 985006006250 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 985006006251 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985006006252 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006006253 Walker A/P-loop; other site 985006006254 ATP binding site [chemical binding]; other site 985006006255 Q-loop/lid; other site 985006006256 ABC transporter signature motif; other site 985006006257 Walker B; other site 985006006258 D-loop; other site 985006006259 H-loop/switch region; other site 985006006260 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 985006006261 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 985006006262 glutaminase active site [active] 985006006263 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 985006006264 dimer interface [polypeptide binding]; other site 985006006265 active site 985006006266 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 985006006267 dimer interface [polypeptide binding]; other site 985006006268 active site 985006006269 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 985006006270 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 985006006271 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 985006006272 active site 985006006273 P-loop; other site 985006006274 phosphorylation site [posttranslational modification] 985006006275 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985006006276 HTH domain; Region: HTH_11; pfam08279 985006006277 Mga helix-turn-helix domain; Region: Mga; pfam05043 985006006278 PRD domain; Region: PRD; pfam00874 985006006279 PRD domain; Region: PRD; pfam00874 985006006280 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 985006006281 active site 985006006282 P-loop; other site 985006006283 phosphorylation site [posttranslational modification] 985006006284 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; cl00163 985006006285 active site 985006006286 phosphorylation site [posttranslational modification] 985006006287 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 985006006288 active site 985006006289 phosphorylation site [posttranslational modification] 985006006290 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 985006006291 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 985006006292 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 985006006293 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 985006006294 SasC/Mrp/FmtB intercellular aggregation domain; Region: SasC_Mrp_aggreg; TIGR04263 985006006295 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006006296 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006006297 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006006298 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006006299 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006006300 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006006301 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006006302 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006006303 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985006006304 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 985006006305 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 985006006306 active site 985006006307 substrate binding site [chemical binding]; other site 985006006308 metal binding site [ion binding]; metal-binding site 985006006309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 985006006310 YbbR-like protein; Region: YbbR; pfam07949 985006006311 YbbR-like protein; Region: YbbR; pfam07949 985006006312 TIGR00159 family protein; Region: TIGR00159 985006006313 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 985006006314 Arginase family; Region: Arginase; cd09989 985006006315 active site 985006006316 Mn binding site [ion binding]; other site 985006006317 oligomer interface [polypeptide binding]; other site 985006006318 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 985006006319 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 985006006320 Walker A motif; other site 985006006321 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 985006006322 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985006006323 putative substrate translocation pore; other site 985006006324 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 985006006325 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985006006326 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 985006006327 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 985006006328 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 985006006329 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 985006006330 substrate binding site; other site 985006006331 dimerization interface; other site 985006006332 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 985006006333 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 985006006334 Nucleoside recognition; Region: Gate; pfam07670 985006006335 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985006006336 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 985006006337 ABC-ATPase subunit interface; other site 985006006338 dimer interface [polypeptide binding]; other site 985006006339 putative PBP binding regions; other site 985006006340 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985006006341 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 985006006342 ABC-ATPase subunit interface; other site 985006006343 dimer interface [polypeptide binding]; other site 985006006344 putative PBP binding regions; other site 985006006345 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 985006006346 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 985006006347 siderophore binding site; other site 985006006348 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 985006006349 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 985006006350 dimer interface [polypeptide binding]; other site 985006006351 active site 985006006352 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985006006353 substrate binding site [chemical binding]; other site 985006006354 catalytic residue [active] 985006006355 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985006006356 IucA / IucC family; Region: IucA_IucC; pfam04183 985006006357 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985006006358 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 985006006359 putative substrate translocation pore; other site 985006006360 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985006006361 IucA / IucC family; Region: IucA_IucC; pfam04183 985006006362 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985006006363 Asp23 family; Region: Asp23; pfam03780 985006006364 Small integral membrane protein [Function unknown]; Region: COG5547 985006006365 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 985006006366 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 985006006367 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 985006006368 putative NAD(P) binding site [chemical binding]; other site 985006006369 dimer interface [polypeptide binding]; other site 985006006370 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 985006006371 Prostaglandin dehydrogenases; Region: PGDH; cd05288 985006006372 NAD(P) binding site [chemical binding]; other site 985006006373 substrate binding site [chemical binding]; other site 985006006374 dimer interface [polypeptide binding]; other site 985006006375 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 985006006376 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 985006006377 beta-galactosidase; Region: BGL; TIGR03356 985006006378 phosphotransferase system, lactose specific, IIC component; Region: lac_pts_IIC; TIGR00394 985006006379 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 985006006380 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 985006006381 active site 985006006382 P-loop; other site 985006006383 phosphorylation site [posttranslational modification] 985006006384 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 985006006385 methionine cluster; other site 985006006386 active site 985006006387 phosphorylation site [posttranslational modification] 985006006388 metal binding site [ion binding]; metal-binding site 985006006389 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 985006006390 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 985006006391 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 985006006392 putative substrate binding site [chemical binding]; other site 985006006393 putative ATP binding site [chemical binding]; other site 985006006394 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 985006006395 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 985006006396 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 985006006397 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 985006006398 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 985006006399 NAD-dependent deacetylase; Provisional; Region: PRK00481 985006006400 SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone...; Region: SIR2H; cd01411 985006006401 NAD+ binding site [chemical binding]; other site 985006006402 substrate binding site [chemical binding]; other site 985006006403 putative Zn binding site [ion binding]; other site 985006006404 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 985006006405 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985006006406 active site 985006006407 catalytic tetrad [active] 985006006408 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 985006006409 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 985006006410 DNA binding residues [nucleotide binding] 985006006411 putative dimer interface [polypeptide binding]; other site 985006006412 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 985006006413 substrate binding site [chemical binding]; other site 985006006414 catalytic residues [active] 985006006415 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 985006006416 Peptidase family M23; Region: Peptidase_M23; pfam01551 985006006417 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 985006006418 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 985006006419 active site 985006006420 motif I; other site 985006006421 motif II; other site 985006006422 MAP domain; Region: MAP; pfam03642 985006006423 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 985006006424 acetolactate synthase; Reviewed; Region: PRK08617 985006006425 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 985006006426 PYR/PP interface [polypeptide binding]; other site 985006006427 dimer interface [polypeptide binding]; other site 985006006428 TPP binding site [chemical binding]; other site 985006006429 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 985006006430 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 985006006431 TPP-binding site [chemical binding]; other site 985006006432 Transcriptional regulator; Region: Rrf2; cl17282 985006006433 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 985006006434 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 985006006435 23S rRNA interface [nucleotide binding]; other site 985006006436 L3 interface [polypeptide binding]; other site 985006006437 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 985006006438 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 985006006439 dimerization interface 3.5A [polypeptide binding]; other site 985006006440 active site 985006006441 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 985006006442 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13646 985006006443 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985006006444 Walker A/P-loop; other site 985006006445 ATP binding site [chemical binding]; other site 985006006446 Q-loop/lid; other site 985006006447 ABC transporter signature motif; other site 985006006448 Walker B; other site 985006006449 D-loop; other site 985006006450 H-loop/switch region; other site 985006006451 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13648 985006006452 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985006006453 Walker A/P-loop; other site 985006006454 ATP binding site [chemical binding]; other site 985006006455 Q-loop/lid; other site 985006006456 ABC transporter signature motif; other site 985006006457 Walker B; other site 985006006458 D-loop; other site 985006006459 H-loop/switch region; other site 985006006460 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 985006006461 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 985006006462 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 985006006463 alphaNTD homodimer interface [polypeptide binding]; other site 985006006464 alphaNTD - beta interaction site [polypeptide binding]; other site 985006006465 alphaNTD - beta' interaction site [polypeptide binding]; other site 985006006466 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 985006006467 30S ribosomal protein S11; Validated; Region: PRK05309 985006006468 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 985006006469 30S ribosomal protein S13; Region: bact_S13; TIGR03631 985006006470 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 985006006471 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 985006006472 rRNA binding site [nucleotide binding]; other site 985006006473 predicted 30S ribosome binding site; other site 985006006474 adenylate kinase; Reviewed; Region: adk; PRK00279 985006006475 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 985006006476 AMP-binding site [chemical binding]; other site 985006006477 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 985006006478 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 985006006479 SecY translocase; Region: SecY; pfam00344 985006006480 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 985006006481 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 985006006482 23S rRNA binding site [nucleotide binding]; other site 985006006483 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 985006006484 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 985006006485 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 985006006486 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 985006006487 5S rRNA interface [nucleotide binding]; other site 985006006488 L27 interface [polypeptide binding]; other site 985006006489 23S rRNA interface [nucleotide binding]; other site 985006006490 L5 interface [polypeptide binding]; other site 985006006491 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 985006006492 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 985006006493 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 985006006494 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 985006006495 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 985006006496 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 985006006497 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 985006006498 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 985006006499 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 985006006500 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 985006006501 RNA binding site [nucleotide binding]; other site 985006006502 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 985006006503 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 985006006504 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 985006006505 23S rRNA interface [nucleotide binding]; other site 985006006506 putative translocon interaction site; other site 985006006507 signal recognition particle (SRP54) interaction site; other site 985006006508 L23 interface [polypeptide binding]; other site 985006006509 trigger factor interaction site; other site 985006006510 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 985006006511 23S rRNA interface [nucleotide binding]; other site 985006006512 5S rRNA interface [nucleotide binding]; other site 985006006513 putative antibiotic binding site [chemical binding]; other site 985006006514 L25 interface [polypeptide binding]; other site 985006006515 L27 interface [polypeptide binding]; other site 985006006516 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 985006006517 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 985006006518 G-X-X-G motif; other site 985006006519 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 985006006520 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 985006006521 putative translocon binding site; other site 985006006522 protein-rRNA interface [nucleotide binding]; other site 985006006523 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 985006006524 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 985006006525 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 985006006526 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 985006006527 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 985006006528 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 985006006529 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 985006006530 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 985006006531 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 985006006532 DNA topoisomerase III; Provisional; Region: PRK07726 985006006533 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 985006006534 active site 985006006535 putative interdomain interaction site [polypeptide binding]; other site 985006006536 putative metal-binding site [ion binding]; other site 985006006537 putative nucleotide binding site [chemical binding]; other site 985006006538 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 985006006539 domain I; other site 985006006540 DNA binding groove [nucleotide binding] 985006006541 phosphate binding site [ion binding]; other site 985006006542 domain II; other site 985006006543 domain III; other site 985006006544 nucleotide binding site [chemical binding]; other site 985006006545 catalytic site [active] 985006006546 domain IV; other site 985006006547 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 985006006548 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006006549 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 985006006550 Coenzyme A binding pocket [chemical binding]; other site 985006006551 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 985006006552 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 985006006553 Predicted permeases [General function prediction only]; Region: COG0679 985006006554 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 985006006555 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 985006006556 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 985006006557 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 985006006558 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 985006006559 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 985006006560 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985006006561 putative substrate translocation pore; other site 985006006562 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 985006006563 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985006006564 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 985006006565 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 985006006566 FeS/SAM binding site; other site 985006006567 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 985006006568 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 985006006569 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 985006006570 GTP binding site; other site 985006006571 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 985006006572 MoaE interaction surface [polypeptide binding]; other site 985006006573 MoeB interaction surface [polypeptide binding]; other site 985006006574 thiocarboxylated glycine; other site 985006006575 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 985006006576 MoaE homodimer interface [polypeptide binding]; other site 985006006577 MoaD interaction [polypeptide binding]; other site 985006006578 active site residues [active] 985006006579 Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]; Region: MobB; COG1763 985006006580 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 985006006581 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 985006006582 dimer interface [polypeptide binding]; other site 985006006583 putative functional site; other site 985006006584 putative MPT binding site; other site 985006006585 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 985006006586 trimer interface [polypeptide binding]; other site 985006006587 dimer interface [polypeptide binding]; other site 985006006588 putative active site [active] 985006006589 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 985006006590 MPT binding site; other site 985006006591 trimer interface [polypeptide binding]; other site 985006006592 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 985006006593 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 985006006594 ATP binding site [chemical binding]; other site 985006006595 substrate interface [chemical binding]; other site 985006006596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006006597 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 985006006598 Walker A/P-loop; other site 985006006599 ATP binding site [chemical binding]; other site 985006006600 Q-loop/lid; other site 985006006601 ABC transporter signature motif; other site 985006006602 Walker B; other site 985006006603 D-loop; other site 985006006604 H-loop/switch region; other site 985006006605 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 985006006606 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 985006006607 dimer interface [polypeptide binding]; other site 985006006608 conserved gate region; other site 985006006609 putative PBP binding loops; other site 985006006610 ABC-ATPase subunit interface; other site 985006006611 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 985006006612 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 985006006613 substrate binding pocket [chemical binding]; other site 985006006614 membrane-bound complex binding site; other site 985006006615 hinge residues; other site 985006006616 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 985006006617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006006618 Coenzyme A binding pocket [chemical binding]; other site 985006006619 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 985006006620 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 985006006621 active site 985006006622 dimerization interface [polypeptide binding]; other site 985006006623 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 985006006624 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 985006006625 intersubunit interface [polypeptide binding]; other site 985006006626 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 985006006627 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 985006006628 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 985006006629 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 985006006630 alpha-gamma subunit interface [polypeptide binding]; other site 985006006631 beta-gamma subunit interface [polypeptide binding]; other site 985006006632 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 985006006633 gamma-beta subunit interface [polypeptide binding]; other site 985006006634 alpha-beta subunit interface [polypeptide binding]; other site 985006006635 urease subunit alpha; Reviewed; Region: ureC; PRK13207 985006006636 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 985006006637 subunit interactions [polypeptide binding]; other site 985006006638 active site 985006006639 flap region; other site 985006006640 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 985006006641 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 985006006642 dimer interface [polypeptide binding]; other site 985006006643 catalytic residues [active] 985006006644 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 985006006645 UreF; Region: UreF; pfam01730 985006006646 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 985006006647 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 985006006648 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 985006006649 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 985006006650 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 985006006651 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985006006652 Helix-turn-helix domain; Region: HTH_18; pfam12833 985006006653 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985006006654 Surface antigen [General function prediction only]; Region: COG3942 985006006655 CHAP domain; Region: CHAP; pfam05257 985006006656 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 985006006657 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 985006006658 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 985006006659 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 985006006660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 985006006661 Surface antigen [General function prediction only]; Region: COG3942 985006006662 CHAP domain; Region: CHAP; pfam05257 985006006663 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 985006006664 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 985006006665 putative ligand binding site [chemical binding]; other site 985006006666 putative NAD binding site [chemical binding]; other site 985006006667 catalytic site [active] 985006006668 hypothetical protein; Provisional; Region: PRK06753 985006006669 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 985006006670 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 985006006671 Lysozyme subfamily 2; Region: LYZ2; smart00047 985006006672 Uncharacterized conserved protein [Function unknown]; Region: COG2427 985006006673 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 985006006674 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 985006006675 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 985006006676 4Fe-4S binding domain; Region: Fer4; pfam00037 985006006677 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 985006006678 [4Fe-4S] binding site [ion binding]; other site 985006006679 molybdopterin cofactor binding site; other site 985006006680 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 985006006681 molybdopterin cofactor binding site; other site 985006006682 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 985006006683 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 985006006684 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 985006006685 active site 985006006686 Predicted transcriptional regulator [Transcription]; Region: COG2378 985006006687 HTH domain; Region: HTH_11; pfam08279 985006006688 CAAX protease self-immunity; Region: Abi; pfam02517 985006006689 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985006006690 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 985006006691 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 985006006692 putative active site [active] 985006006693 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 985006006694 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 985006006695 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 985006006696 active site 985006006697 motif I; other site 985006006698 motif II; other site 985006006699 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 985006006700 Sodium Bile acid symporter family; Region: SBF; pfam01758 985006006701 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 985006006702 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985006006703 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 985006006704 active site turn [active] 985006006705 phosphorylation site [posttranslational modification] 985006006706 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985006006707 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 985006006708 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 985006006709 putative active site [active] 985006006710 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 985006006711 putative hydrophobic ligand binding site [chemical binding]; other site 985006006712 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 985006006713 oxidoreductase; Provisional; Region: PRK07985 985006006714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985006006715 NAD(P) binding site [chemical binding]; other site 985006006716 active site 985006006717 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 985006006718 amidohydrolase; Region: amidohydrolases; TIGR01891 985006006719 metal binding site [ion binding]; metal-binding site 985006006720 dimer interface [polypeptide binding]; other site 985006006721 imidazolonepropionase; Validated; Region: PRK09356 985006006722 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 985006006723 active site 985006006724 urocanate hydratase; Provisional; Region: PRK05414 985006006725 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985006006726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985006006727 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 985006006728 dimerization interface [polypeptide binding]; other site 985006006729 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 985006006730 FosB, a fosfomycin resistance protein, catalyzes the Mg(II) dependent addition of L-cysteine to the epoxide ring of fosfomycin; Region: FosB; cd08363 985006006731 putative active site [active] 985006006732 putative Mg binding site [ion binding]; other site 985006006733 formimidoylglutamase; Provisional; Region: PRK13775 985006006734 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 985006006735 putative active site [active] 985006006736 putative metal binding site [ion binding]; other site 985006006737 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 985006006738 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 985006006739 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985006006740 active site 985006006741 dimer interface [polypeptide binding]; other site 985006006742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 985006006743 MOSC domain; Region: MOSC; pfam03473 985006006744 3-alpha domain; Region: 3-alpha; pfam03475 985006006745 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 985006006746 active site 985006006747 catalytic residues [active] 985006006748 Uncharacterized conserved protein [Function unknown]; Region: COG1742 985006006749 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 985006006750 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 985006006751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006006752 Walker A/P-loop; other site 985006006753 ATP binding site [chemical binding]; other site 985006006754 Q-loop/lid; other site 985006006755 ABC transporter signature motif; other site 985006006756 Walker B; other site 985006006757 D-loop; other site 985006006758 H-loop/switch region; other site 985006006759 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 985006006760 Predicted membrane protein [Function unknown]; Region: COG3152 985006006761 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 985006006762 active site 985006006763 DNA binding site [nucleotide binding] 985006006764 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 985006006765 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 985006006766 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 985006006767 homotetramer interface [polypeptide binding]; other site 985006006768 FMN binding site [chemical binding]; other site 985006006769 homodimer contacts [polypeptide binding]; other site 985006006770 putative active site [active] 985006006771 putative substrate binding site [chemical binding]; other site 985006006772 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 985006006773 Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u2; cd12831 985006006774 oligomer interface [polypeptide binding]; other site 985006006775 metal binding site [ion binding]; metal-binding site 985006006776 metal binding site [ion binding]; metal-binding site 985006006777 putative Cl binding site [ion binding]; other site 985006006778 aspartate ring; other site 985006006779 basic sphincter; other site 985006006780 hydrophobic gate; other site 985006006781 periplasmic entrance; other site 985006006782 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 985006006783 active site 985006006784 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 985006006785 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 985006006786 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 985006006787 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985006006788 putative substrate translocation pore; other site 985006006789 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 985006006790 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 985006006791 lipoyl-biotinyl attachment site [posttranslational modification]; other site 985006006792 HlyD family secretion protein; Region: HlyD_3; pfam13437 985006006793 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 985006006794 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 985006006795 putative substrate translocation pore; other site 985006006796 Predicted membrane protein [Function unknown]; Region: COG4640 985006006797 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 985006006798 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985006006799 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 985006006800 putative Zn2+ binding site [ion binding]; other site 985006006801 putative DNA binding site [nucleotide binding]; other site 985006006802 Uncharacterized conserved protein [Function unknown]; Region: COG1434 985006006803 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 985006006804 putative active site [active] 985006006806 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985006006807 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 985006006808 Walker A/P-loop; other site 985006006809 ATP binding site [chemical binding]; other site 985006006810 Q-loop/lid; other site 985006006811 ABC transporter signature motif; other site 985006006812 Walker B; other site 985006006813 D-loop; other site 985006006814 H-loop/switch region; other site 985006006815 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 985006006816 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 985006006817 FtsX-like permease family; Region: FtsX; pfam02687 985006006818 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985006006819 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006006820 active site 985006006821 phosphorylation site [posttranslational modification] 985006006822 intermolecular recognition site; other site 985006006823 dimerization interface [polypeptide binding]; other site 985006006824 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 985006006825 DNA binding site [nucleotide binding] 985006006826 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985006006827 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 985006006828 dimerization interface [polypeptide binding]; other site 985006006829 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 985006006830 dimer interface [polypeptide binding]; other site 985006006831 phosphorylation site [posttranslational modification] 985006006832 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 985006006833 ATP binding site [chemical binding]; other site 985006006834 Mg2+ binding site [ion binding]; other site 985006006835 G-X-G motif; other site 985006006836 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 985006006837 LytTr DNA-binding domain; Region: LytTR; smart00850 985006006838 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 985006006839 CDS contains a nonsense mutation (opal) after codon 169 985006006840 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 985006006841 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 985006006842 Walker A/P-loop; other site 985006006843 ATP binding site [chemical binding]; other site 985006006844 Q-loop/lid; other site 985006006845 ABC transporter signature motif; other site 985006006846 Walker B; other site 985006006847 D-loop; other site 985006006848 H-loop/switch region; other site 985006006849 Malate:quinone oxidoreductase (Mqo); Region: Mqo; pfam06039 985006006850 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 985006006851 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 985006006852 L-lactate permease; Region: Lactate_perm; cl00701 985006006853 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 985006006854 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 985006006855 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006006856 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985006006857 Coenzyme A binding pocket [chemical binding]; other site 985006006858 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 985006006859 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 985006006860 NAD(P) binding site [chemical binding]; other site 985006006861 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006006862 Coenzyme A binding pocket [chemical binding]; other site 985006006863 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 985006006864 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985006006865 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985006006866 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 985006006867 Predicted membrane protein [Function unknown]; Region: COG1511 985006006868 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 985006006869 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 985006006870 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985006006871 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 985006006872 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 985006006873 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 985006006874 Cl binding site [ion binding]; other site 985006006875 oligomer interface [polypeptide binding]; other site 985006006876 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 985006006877 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 985006006878 active site turn [active] 985006006879 phosphorylation site [posttranslational modification] 985006006880 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985006006881 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 985006006882 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985006006883 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985006006884 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 985006006885 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 985006006886 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 985006006887 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 985006006888 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 985006006889 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985006006890 MarR family; Region: MarR_2; pfam12802 985006006891 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 985006006892 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 985006006893 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 985006006894 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 985006006895 putative substrate translocation pore; other site 985006006896 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985006006897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006006898 active site 985006006899 phosphorylation site [posttranslational modification] 985006006900 intermolecular recognition site; other site 985006006901 dimerization interface [polypeptide binding]; other site 985006006902 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 985006006903 DNA binding residues [nucleotide binding] 985006006904 dimerization interface [polypeptide binding]; other site 985006006905 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985006006906 Histidine kinase; Region: HisKA_3; pfam07730 985006006907 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 985006006908 ATP binding site [chemical binding]; other site 985006006909 Mg2+ binding site [ion binding]; other site 985006006910 G-X-G motif; other site 985006006911 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 985006006912 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 985006006913 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 985006006914 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 985006006915 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 985006006916 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 985006006917 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 985006006918 [4Fe-4S] binding site [ion binding]; other site 985006006919 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 985006006920 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 985006006921 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 985006006922 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 985006006923 molybdopterin cofactor binding site; other site 985006006924 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 985006006925 active site 985006006926 SAM binding site [chemical binding]; other site 985006006927 homodimer interface [polypeptide binding]; other site 985006006928 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 985006006929 [2Fe-2S] cluster binding site [ion binding]; other site 985006006930 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 985006006931 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985006006932 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985006006933 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 985006006934 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 985006006935 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 985006006936 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 985006006937 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 985006006938 putative active site [active] 985006006939 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 985006006940 active site 985006006941 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985006006942 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006006943 Coenzyme A binding pocket [chemical binding]; other site 985006006944 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 985006006945 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 985006006946 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 985006006947 putative hydrophobic ligand binding site [chemical binding]; other site 985006006948 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 985006006949 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 985006006950 intersubunit interface [polypeptide binding]; other site 985006006951 YodA lipocalin-like domain; Region: YodA; pfam09223 985006006952 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 985006006953 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 985006006954 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 985006006955 Thioredoxin; Region: Thioredoxin_4; cl17273 985006006956 FemAB family; Region: FemAB; pfam02388 985006006957 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985006006958 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 985006006959 Walker A/P-loop; other site 985006006960 ATP binding site [chemical binding]; other site 985006006961 Q-loop/lid; other site 985006006962 ABC transporter signature motif; other site 985006006963 Walker B; other site 985006006964 D-loop; other site 985006006965 H-loop/switch region; other site 985006006966 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 985006006967 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 985006006968 dimer interface [polypeptide binding]; other site 985006006969 conserved gate region; other site 985006006970 putative PBP binding loops; other site 985006006971 ABC-ATPase subunit interface; other site 985006006972 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985006006973 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 985006006974 substrate binding pocket [chemical binding]; other site 985006006975 membrane-bound complex binding site; other site 985006006976 hinge residues; other site 985006006977 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 985006006978 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985006006979 putative substrate translocation pore; other site 985006006980 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 985006006981 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 985006006982 catalytic core [active] 985006006983 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 985006006984 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 985006006985 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 985006006986 B domain; Region: B; pfam02216 985006006987 B domain; Region: B; pfam02216 985006006988 C3 binding domain 4 of IgG-bind protein SBI; Region: Sbi-IV; pfam11621 985006006989 Leukocidin/Hemolysin toxin family; Region: Leukocidin; pfam07968 985006006990 Leukocidin/Hemolysin toxin family; Region: Leukocidin; pfam07968 985006006991 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 985006006992 Pimeloyl-CoA synthetase [Coenzyme metabolism]; Region: BioW; COG1424 985006006993 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 985006006994 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 985006006995 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985006006996 catalytic residue [active] 985006006997 biotin synthase; Validated; Region: PRK06256 985006006998 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 985006006999 FeS/SAM binding site; other site 985006007000 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 985006007001 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 985006007002 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 985006007003 inhibitor-cofactor binding pocket; inhibition site 985006007004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006007005 catalytic residue [active] 985006007006 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 985006007007 AAA domain; Region: AAA_26; pfam13500 985006007008 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 985006007009 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 985006007010 Walker A/P-loop; other site 985006007011 ATP binding site [chemical binding]; other site 985006007012 Q-loop/lid; other site 985006007013 ABC transporter signature motif; other site 985006007014 Walker B; other site 985006007015 D-loop; other site 985006007016 H-loop/switch region; other site 985006007017 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985006007018 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985006007019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006007020 Walker A/P-loop; other site 985006007021 ATP binding site [chemical binding]; other site 985006007022 Q-loop/lid; other site 985006007023 ABC transporter signature motif; other site 985006007024 Walker B; other site 985006007025 D-loop; other site 985006007026 H-loop/switch region; other site 985006007027 Predicted membrane protein [Function unknown]; Region: COG2246 985006007028 GtrA-like protein; Region: GtrA; pfam04138 985006007029 glycerate kinase; Region: TIGR00045 985006007030 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 985006007031 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 985006007032 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 985006007033 putative substrate translocation pore; other site 985006007034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 985006007035 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 985006007036 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 985006007037 putative phosphoesterase; Region: acc_ester; TIGR03729 985006007038 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 985006007039 Spore germination protein; Region: Spore_permease; cl17796 985006007040 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 985006007041 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 985006007042 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 985006007043 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 985006007044 Beta-lactamase; Region: Beta-lactamase; pfam00144 985006007045 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 985006007046 extended (e) SDRs; Region: SDR_e; cd08946 985006007047 NAD(P) binding site [chemical binding]; other site 985006007048 active site 985006007049 substrate binding site [chemical binding]; other site 985006007050 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 985006007051 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 985006007052 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 985006007053 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985006007054 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 985006007055 putative substrate translocation pore; other site 985006007056 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 985006007057 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 985006007058 dimer interface [polypeptide binding]; other site 985006007059 conserved gate region; other site 985006007060 ABC-ATPase subunit interface; other site 985006007061 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 985006007062 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 985006007063 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 985006007064 dimer interface [polypeptide binding]; other site 985006007065 conserved gate region; other site 985006007066 putative PBP binding loops; other site 985006007067 ABC-ATPase subunit interface; other site 985006007068 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 985006007069 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 985006007070 Walker A/P-loop; other site 985006007071 ATP binding site [chemical binding]; other site 985006007072 Q-loop/lid; other site 985006007073 ABC transporter signature motif; other site 985006007074 Walker B; other site 985006007075 D-loop; other site 985006007076 H-loop/switch region; other site 985006007077 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 985006007078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 985006007079 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 985006007080 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 985006007081 amino acid transporter; Region: 2A0306; TIGR00909 985006007082 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 985006007083 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 985006007084 substrate binding pocket [chemical binding]; other site 985006007085 catalytic triad [active] 985006007086 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 985006007087 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 985006007088 putative substrate translocation pore; other site 985006007089 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 985006007090 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 985006007091 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985006007092 Walker A/P-loop; other site 985006007093 ATP binding site [chemical binding]; other site 985006007094 Q-loop/lid; other site 985006007095 ABC transporter signature motif; other site 985006007096 Walker B; other site 985006007097 D-loop; other site 985006007098 H-loop/switch region; other site 985006007099 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 985006007100 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 985006007101 oligomer interface [polypeptide binding]; other site 985006007102 active site 985006007103 metal binding site [ion binding]; metal-binding site 985006007104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4115 985006007105 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 985006007106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 985006007107 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 985006007108 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 985006007109 active site 985006007110 FMN binding site [chemical binding]; other site 985006007111 substrate binding site [chemical binding]; other site 985006007112 3Fe-4S cluster binding site [ion binding]; other site 985006007113 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 985006007114 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985006007115 putative substrate translocation pore; other site 985006007116 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985006007117 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985006007118 Walker A/P-loop; other site 985006007119 ATP binding site [chemical binding]; other site 985006007120 Q-loop/lid; other site 985006007121 ABC transporter signature motif; other site 985006007122 Walker B; other site 985006007123 D-loop; other site 985006007124 H-loop/switch region; other site 985006007125 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985006007126 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 985006007127 Walker A/P-loop; other site 985006007128 ATP binding site [chemical binding]; other site 985006007129 Q-loop/lid; other site 985006007130 ABC transporter signature motif; other site 985006007131 Walker B; other site 985006007132 D-loop; other site 985006007133 H-loop/switch region; other site 985006007134 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985006007135 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 985006007136 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 985006007137 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 985006007138 dimer interface [polypeptide binding]; other site 985006007139 conserved gate region; other site 985006007140 putative PBP binding loops; other site 985006007141 ABC-ATPase subunit interface; other site 985006007142 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985006007143 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 985006007144 dimer interface [polypeptide binding]; other site 985006007145 conserved gate region; other site 985006007146 putative PBP binding loops; other site 985006007147 ABC-ATPase subunit interface; other site 985006007148 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985006007149 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 985006007150 substrate binding site [chemical binding]; other site 985006007151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4408 985006007152 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 985006007153 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 985006007154 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 985006007155 short chain dehydrogenase; Validated; Region: PRK08589 985006007156 classical (c) SDRs; Region: SDR_c; cd05233 985006007157 NAD(P) binding site [chemical binding]; other site 985006007158 active site 985006007159 AbgT putative transporter family; Region: ABG_transport; pfam03806 985006007160 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 985006007161 Uncharacterized conserved protein [Function unknown]; Region: COG2128 985006007162 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 985006007163 CDS is truncated by the insertion of a ISSau2 element in the C-terminus, the effect on the function of protein is not known 985006007164 HTH-like domain; Region: HTH_21; pfam13276 985006007165 Integrase core domain; Region: rve; pfam00665 985006007166 Integrase core domain; Region: rve_3; cl15866 985006007167 Transposase; Region: HTH_Tnp_1; cl17663 985006007168 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 985006007169 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 985006007170 Helix-turn-helix domain; Region: HTH_28; pfam13518 985006007171 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 985006007172 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 985006007173 Probable gene remnant 985006007174 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 985006007175 nucleophilic elbow; other site 985006007176 catalytic triad; other site 985006007177 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 985006007178 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 985006007179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985006007180 NAD(P) binding site [chemical binding]; other site 985006007181 active site 985006007182 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 985006007183 Protein of unknown function, DUF576; Region: DUF576; pfam04507 985006007184 Protein of unknown function, DUF576; Region: DUF576; pfam04507 985006007185 Protein of unknown function, DUF576; Region: DUF576; pfam04507 985006007186 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 985006007187 PLD-like domain; Region: PLDc_2; pfam13091 985006007188 putative homodimer interface [polypeptide binding]; other site 985006007189 putative active site [active] 985006007190 catalytic site [active] 985006007191 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 985006007192 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 985006007193 ATP binding site [chemical binding]; other site 985006007194 putative Mg++ binding site [ion binding]; other site 985006007195 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 985006007196 nucleotide binding region [chemical binding]; other site 985006007197 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 985006007198 ATP-binding site [chemical binding]; other site 985006007199 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 985006007200 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 985006007201 active site 985006007202 8-oxo-dGMP binding site [chemical binding]; other site 985006007203 nudix motif; other site 985006007204 metal binding site [ion binding]; metal-binding site 985006007205 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 985006007206 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 985006007207 active site 985006007208 substrate binding site [chemical binding]; other site 985006007209 metal binding site [ion binding]; metal-binding site 985006007210 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 985006007211 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 985006007212 active site 985006007213 tetramer interface; other site 985006007214 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985006007215 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 985006007216 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985006007217 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 985006007218 GntP family permease; Region: GntP_permease; pfam02447 985006007219 fructuronate transporter; Provisional; Region: PRK10034; cl15264 985006007220 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 985006007221 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 985006007222 N- and C-terminal domain interface [polypeptide binding]; other site 985006007223 active site 985006007224 catalytic site [active] 985006007225 metal binding site [ion binding]; metal-binding site 985006007226 carbohydrate binding site [chemical binding]; other site 985006007227 ATP binding site [chemical binding]; other site 985006007228 Transcriptional regulators [Transcription]; Region: GntR; COG1802 985006007229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985006007230 DNA-binding site [nucleotide binding]; DNA binding site 985006007231 FCD domain; Region: FCD; pfam07729 985006007232 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 985006007233 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 985006007234 DNA binding residues [nucleotide binding] 985006007235 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 985006007236 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 985006007237 synthetase active site [active] 985006007238 NTP binding site [chemical binding]; other site 985006007239 metal binding site [ion binding]; metal-binding site 985006007240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 985006007241 Predicted membrane protein [Function unknown]; Region: COG1289 985006007242 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 985006007243 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 985006007244 D-galactonate transporter; Region: 2A0114; TIGR00893 985006007245 putative substrate translocation pore; other site 985006007246 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 985006007247 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 985006007248 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 985006007249 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985006007250 putative substrate translocation pore; other site 985006007251 MarR family; Region: MarR; pfam01047 985006007252 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 985006007253 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006007254 Walker A/P-loop; other site 985006007255 ATP binding site [chemical binding]; other site 985006007256 Q-loop/lid; other site 985006007257 ABC transporter signature motif; other site 985006007258 Walker B; other site 985006007259 D-loop; other site 985006007260 H-loop/switch region; other site 985006007261 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 985006007262 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 985006007263 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 985006007264 Uncharacterized membrane protein [Function unknown]; Region: COG3949 985006007265 Predicted esterase [General function prediction only]; Region: COG0400 985006007266 putative hydrolase; Provisional; Region: PRK11460 985006007267 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 985006007268 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985006007269 Zn binding site [ion binding]; other site 985006007270 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 985006007271 Zn binding site [ion binding]; other site 985006007272 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985006007273 MarR family; Region: MarR; pfam01047 985006007274 Predicted acetyltransferase [General function prediction only]; Region: COG2388 985006007275 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 985006007276 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 985006007277 putative metal binding site [ion binding]; other site 985006007278 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 985006007279 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 985006007280 dimer interface [polypeptide binding]; other site 985006007281 FMN binding site [chemical binding]; other site 985006007282 D-lactate dehydrogenase; Provisional; Region: PRK12480 985006007283 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 985006007284 homodimer interface [polypeptide binding]; other site 985006007285 ligand binding site [chemical binding]; other site 985006007286 NAD binding site [chemical binding]; other site 985006007287 catalytic site [active] 985006007288 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 985006007289 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 985006007290 active site 985006007291 motif I; other site 985006007292 motif II; other site 985006007293 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985006007294 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 985006007295 Walker A/P-loop; other site 985006007296 ATP binding site [chemical binding]; other site 985006007297 Q-loop/lid; other site 985006007298 ABC transporter signature motif; other site 985006007299 Walker B; other site 985006007300 D-loop; other site 985006007301 H-loop/switch region; other site 985006007302 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cd00004 985006007303 active site 985006007304 catalytic site [active] 985006007305 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 985006007306 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006007307 Coenzyme A binding pocket [chemical binding]; other site 985006007308 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 985006007309 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 985006007310 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 985006007311 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 985006007312 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 985006007313 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 985006007314 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 985006007315 EamA-like transporter family; Region: EamA; pfam00892 985006007316 EamA-like transporter family; Region: EamA; pfam00892 985006007317 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 985006007318 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 985006007319 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 985006007320 catalytic residues [active] 985006007321 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 985006007322 active site 985006007323 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985006007324 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 985006007325 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 985006007326 active site turn [active] 985006007327 phosphorylation site [posttranslational modification] 985006007328 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 985006007329 HPr interaction site; other site 985006007330 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985006007331 active site 985006007332 phosphorylation site [posttranslational modification] 985006007333 pyruvate oxidase; Provisional; Region: PRK08611 985006007334 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 985006007335 PYR/PP interface [polypeptide binding]; other site 985006007336 tetramer interface [polypeptide binding]; other site 985006007337 dimer interface [polypeptide binding]; other site 985006007338 TPP binding site [chemical binding]; other site 985006007339 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 985006007340 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 985006007341 TPP-binding site [chemical binding]; other site 985006007342 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 985006007343 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 985006007344 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985006007345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985006007346 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 985006007347 putative dimerization interface [polypeptide binding]; other site 985006007348 Protein of unknown function (DUF1250); Region: DUF1250; pfam06855 985006007349 Surface antigen [General function prediction only]; Region: COG3942 985006007350 CHAP domain; Region: CHAP; pfam05257 985006007351 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 985006007352 homodimer interface [polypeptide binding]; other site 985006007353 catalytic residues [active] 985006007354 NAD binding site [chemical binding]; other site 985006007355 substrate binding pocket [chemical binding]; other site 985006007356 flexible flap; other site 985006007357 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 985006007358 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 985006007359 dimer interface [polypeptide binding]; other site 985006007360 active site 985006007361 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 985006007362 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 985006007363 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 985006007364 DNA binding site [nucleotide binding] 985006007365 active site 985006007366 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 985006007367 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 985006007368 Walker A motif; other site 985006007369 ATP binding site [chemical binding]; other site 985006007370 Walker B motif; other site 985006007371 arginine finger; other site 985006007372 UvrB/uvrC motif; Region: UVR; pfam02151 985006007373 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 985006007374 Walker A motif; other site 985006007375 ATP binding site [chemical binding]; other site 985006007376 Walker B motif; other site 985006007377 arginine finger; other site 985006007378 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 985006007379 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 985006007380 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 985006007381 G1 box; other site 985006007382 GTP/Mg2+ binding site [chemical binding]; other site 985006007383 Switch I region; other site 985006007384 G2 box; other site 985006007385 G3 box; other site 985006007386 Switch II region; other site 985006007387 G4 box; other site 985006007388 G5 box; other site 985006007389 Nucleoside recognition; Region: Gate; pfam07670 985006007390 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 985006007391 Nucleoside recognition; Region: Gate; pfam07670 985006007392 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 985006007393 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 985006007394 Protein export membrane protein; Region: SecD_SecF; cl14618 985006007395 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985006007396 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 985006007397 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 985006007398 Glutamate binding site [chemical binding]; other site 985006007399 homodimer interface [polypeptide binding]; other site 985006007400 NAD binding site [chemical binding]; other site 985006007401 catalytic residues [active] 985006007402 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 985006007403 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 985006007404 active site 985006007405 substrate binding site [chemical binding]; other site 985006007406 trimer interface [polypeptide binding]; other site 985006007407 CoA binding site [chemical binding]; other site 985006007408 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 985006007409 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 985006007410 metal-binding site [ion binding] 985006007411 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 985006007412 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 985006007413 metal-binding site [ion binding] 985006007414 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 985006007415 Soluble P-type ATPase [General function prediction only]; Region: COG4087 985006007416 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 985006007417 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 985006007418 metal-binding site [ion binding] 985006007419 D-lactate dehydrogenase; Validated; Region: PRK08605 985006007420 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 985006007421 homodimer interface [polypeptide binding]; other site 985006007422 ligand binding site [chemical binding]; other site 985006007423 NAD binding site [chemical binding]; other site 985006007424 catalytic site [active] 985006007425 transaminase; Reviewed; Region: PRK08068 985006007426 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 985006007427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006007428 homodimer interface [polypeptide binding]; other site 985006007429 catalytic residue [active] 985006007430 phytoene desaturase; Region: crtI_fam; TIGR02734 985006007431 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 985006007432 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 985006007433 active site lid residues [active] 985006007434 substrate binding pocket [chemical binding]; other site 985006007435 catalytic residues [active] 985006007436 substrate-Mg2+ binding site; other site 985006007437 aspartate-rich region 1; other site 985006007438 aspartate-rich region 2; other site 985006007439 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985006007440 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 985006007441 active site 985006007442 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 985006007443 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 985006007444 Adenylosuccinate lyase C-terminus; Region: ADSL_C; cl17237 985006007445 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985006007446 Surface antigen [General function prediction only]; Region: COG3942 985006007447 CHAP domain; Region: CHAP; pfam05257 985006007448 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 985006007449 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 985006007450 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 985006007451 catalytic triad [active] 985006007452 catalytic triad [active] 985006007453 oxyanion hole [active] 985006007454 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985006007455 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006007456 Coenzyme A binding pocket [chemical binding]; other site 985006007457 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 985006007458 N-acetyl-D-glucosamine binding site [chemical binding]; other site 985006007459 catalytic residue [active] 985006007460 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 985006007461 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 985006007462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985006007463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985006007464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 985006007465 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 985006007466 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985006007467 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 985006007468 NmrA-like family; Region: NmrA; pfam05368 985006007469 NADP binding site [chemical binding]; other site 985006007470 active site 985006007471 regulatory binding site [polypeptide binding]; other site 985006007472 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 985006007473 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985006007474 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985006007475 short chain dehydrogenase; Provisional; Region: PRK12937 985006007476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985006007477 NAD(P) binding site [chemical binding]; other site 985006007478 active site 985006007479 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 985006007480 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 985006007481 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 985006007482 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 985006007483 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 985006007484 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 985006007485 Nucleoside recognition; Region: Gate; pfam07670 985006007486 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 985006007487 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 985006007488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4495 985006007489 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 985006007490 type VII secretion effector, SACOL2603 family; Region: T7SS_SACOL2603; TIGR04197 985006007491 Phosphotransferase enzyme family; Region: APH; pfam01636 985006007492 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 985006007493 active site 985006007494 ATP binding site [chemical binding]; other site 985006007495 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 985006007496 active site 985006007497 ATP binding site [chemical binding]; other site 985006007498 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 985006007499 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 985006007500 quinone interaction residues [chemical binding]; other site 985006007501 active site 985006007502 catalytic residues [active] 985006007503 FMN binding site [chemical binding]; other site 985006007504 substrate binding site [chemical binding]; other site 985006007505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 985006007506 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 985006007507 dimer interface [polypeptide binding]; other site 985006007508 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985006007509 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985006007510 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985006007511 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 985006007512 Predicted acyl esterases [General function prediction only]; Region: COG2936 985006007513 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 985006007514 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 985006007515 tetramerization interface [polypeptide binding]; other site 985006007516 active site 985006007517 pantoate--beta-alanine ligase; Region: panC; TIGR00018 985006007518 Pantoate-beta-alanine ligase; Region: PanC; cd00560 985006007519 active site 985006007520 ATP-binding site [chemical binding]; other site 985006007521 pantoate-binding site; other site 985006007522 HXXH motif; other site 985006007523 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 985006007524 oligomerization interface [polypeptide binding]; other site 985006007525 active site 985006007526 metal binding site [ion binding]; metal-binding site 985006007527 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 985006007528 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 985006007529 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 985006007530 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 985006007531 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 985006007532 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 985006007533 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985006007534 NAD binding site [chemical binding]; other site 985006007535 dimer interface [polypeptide binding]; other site 985006007536 substrate binding site [chemical binding]; other site 985006007537 amino acid transporter; Region: 2A0306; TIGR00909 985006007538 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 985006007539 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 985006007540 inhibitor-cofactor binding pocket; inhibition site 985006007541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006007542 catalytic residue [active] 985006007543 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 985006007544 catalytic residue [active] 985006007545 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 985006007546 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 985006007547 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 985006007548 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 985006007549 acyl-activating enzyme (AAE) consensus motif; other site 985006007550 AMP binding site [chemical binding]; other site 985006007551 active site 985006007552 CoA binding site [chemical binding]; other site 985006007553 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 985006007554 Protein of unknown function (DUF1250); Region: DUF1250; pfam06855 985006007555 choline dehydrogenase; Validated; Region: PRK02106 985006007556 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 985006007557 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 985006007558 glycine betaine aldehyde dehydrogenase; Region: BADH; TIGR01804 985006007559 tetramerization interface [polypeptide binding]; other site 985006007560 NAD(P) binding site [chemical binding]; other site 985006007561 catalytic residues [active] 985006007562 Predicted transcriptional regulators [Transcription]; Region: COG1510 985006007563 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 985006007564 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 985006007565 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 985006007566 FeS/SAM binding site; other site 985006007567 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 985006007568 Class III ribonucleotide reductase; Region: RNR_III; cd01675 985006007569 effector binding site; other site 985006007570 active site 985006007571 Zn binding site [ion binding]; other site 985006007572 glycine loop; other site 985006007573 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 985006007574 Citrate transporter; Region: CitMHS; pfam03600 985006007575 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 985006007576 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 985006007577 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 985006007578 Flavodoxin; Region: Flavodoxin_1; pfam00258 985006007579 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 985006007580 FAD binding pocket [chemical binding]; other site 985006007581 FAD binding motif [chemical binding]; other site 985006007582 catalytic residues [active] 985006007583 NAD binding pocket [chemical binding]; other site 985006007584 phosphate binding motif [ion binding]; other site 985006007585 beta-alpha-beta structure motif; other site 985006007586 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 985006007587 catalytic residues [active] 985006007588 dimer interface [polypeptide binding]; other site 985006007589 FtsX-like permease family; Region: FtsX; pfam02687 985006007590 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985006007591 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 985006007592 Walker A/P-loop; other site 985006007593 ATP binding site [chemical binding]; other site 985006007594 Q-loop/lid; other site 985006007595 ABC transporter signature motif; other site 985006007596 Walker B; other site 985006007597 D-loop; other site 985006007598 H-loop/switch region; other site 985006007599 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985006007600 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 985006007601 ATP binding site [chemical binding]; other site 985006007602 Mg2+ binding site [ion binding]; other site 985006007603 G-X-G motif; other site 985006007604 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985006007605 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 985006007606 active site 985006007607 phosphorylation site [posttranslational modification] 985006007608 intermolecular recognition site; other site 985006007609 dimerization interface [polypeptide binding]; other site 985006007610 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 985006007611 DNA binding site [nucleotide binding] 985006007612 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 985006007613 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 985006007614 dimer interface [polypeptide binding]; other site 985006007615 active site 985006007616 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 985006007617 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985006007618 MarR family; Region: MarR_2; pfam12802 985006007619 Predicted esterase [General function prediction only]; Region: COG0627 985006007620 S-formylglutathione hydrolase; Region: PLN02442 985006007621 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 985006007622 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985006007623 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 985006007624 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 985006007625 ligand binding site [chemical binding]; other site 985006007626 flexible hinge region; other site 985006007627 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 985006007628 carbamate kinase; Reviewed; Region: PRK12686 985006007629 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 985006007630 putative substrate binding site [chemical binding]; other site 985006007631 nucleotide binding site [chemical binding]; other site 985006007632 nucleotide binding site [chemical binding]; other site 985006007633 homodimer interface [polypeptide binding]; other site 985006007634 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 985006007635 ornithine carbamoyltransferase; Validated; Region: PRK02102 985006007636 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 985006007637 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 985006007638 arginine deiminase; Provisional; Region: PRK01388 985006007639 Arginine repressor [Transcription]; Region: ArgR; COG1438 985006007640 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 985006007641 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 985006007642 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 985006007643 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 985006007644 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 985006007645 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 985006007646 active site 985006007647 Zn binding site [ion binding]; other site 985006007648 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985006007649 HTH domain; Region: HTH_11; pfam08279 985006007650 PRD domain; Region: PRD; pfam00874 985006007651 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 985006007652 active site 985006007653 P-loop; other site 985006007654 phosphorylation site [posttranslational modification] 985006007655 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 985006007656 active site 985006007657 phosphorylation site [posttranslational modification] 985006007658 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 985006007659 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 985006007660 active site 985006007661 P-loop; other site 985006007662 phosphorylation site [posttranslational modification] 985006007663 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 985006007664 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 985006007665 active site 985006007666 phosphorylation site [posttranslational modification] 985006007667 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 985006007668 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 985006007669 Predicted membrane protein [Function unknown]; Region: COG1511 985006007670 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 985006007671 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 985006007672 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 985006007673 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 985006007674 CHAP domain; Region: CHAP; pfam05257 985006007675 Isochorismatase family; Region: Isochorismatase; pfam00857 985006007676 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 985006007677 catalytic triad [active] 985006007678 conserved cis-peptide bond; other site 985006007679 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 985006007680 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 985006007681 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 985006007682 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 985006007683 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 985006007684 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 985006007685 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 985006007686 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 985006007687 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 985006007688 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 985006007689 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 985006007690 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12417 985006007691 SecY translocase; Region: SecY; pfam00344 985006007692 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 985006007693 legume lectins; Region: lectin_L-type; cd01951 985006007694 homotetramer interaction site [polypeptide binding]; other site 985006007695 carbohydrate binding site [chemical binding]; other site 985006007696 metal binding site [ion binding]; metal-binding site 985006007697 Putative Ig domain; Region: He_PIG; pfam05345 985006007698 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 985006007701 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 985006007702 methionine sulfoxide reductase A; Provisional; Region: PRK05528 985006007703 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 985006007704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985006007705 Coenzyme A binding pocket [chemical binding]; other site 985006007706 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 985006007707 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 985006007708 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 985006007709 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 985006007710 Chain length determinant protein; Region: Wzz; cl15801 985006007711 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985006007712 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985006007713 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 985006007714 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 985006007715 DXD motif; other site 985006007716 intracellular adhesion protein D; Region: PIA_icaD; TIGR03932 985006007717 intercellular adhesin biosynthesis polysaccharide N-deacetylase; Region: PIA_icaB; TIGR03933 985006007718 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]; Region: COG3936 985006007719 Acyltransferase family; Region: Acyl_transf_3; pfam01757 985006007720 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 985006007721 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 985006007722 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 985006007723 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 985006007724 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 985006007725 metal binding site [ion binding]; metal-binding site 985006007726 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 985006007727 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 985006007728 substrate binding site [chemical binding]; other site 985006007729 glutamase interaction surface [polypeptide binding]; other site 985006007730 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 985006007731 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 985006007732 catalytic residues [active] 985006007733 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 985006007734 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 985006007735 putative active site [active] 985006007736 oxyanion strand; other site 985006007737 catalytic triad [active] 985006007738 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 985006007739 putative active site pocket [active] 985006007740 4-fold oligomerization interface [polypeptide binding]; other site 985006007741 metal binding residues [ion binding]; metal-binding site 985006007742 3-fold/trimer interface [polypeptide binding]; other site 985006007743 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 985006007744 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 985006007745 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985006007746 homodimer interface [polypeptide binding]; other site 985006007747 catalytic residue [active] 985006007748 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 985006007749 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 985006007750 NAD binding site [chemical binding]; other site 985006007751 dimerization interface [polypeptide binding]; other site 985006007752 product binding site; other site 985006007753 substrate binding site [chemical binding]; other site 985006007754 zinc binding site [ion binding]; other site 985006007755 catalytic residues [active] 985006007756 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13584 985006007757 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 985006007758 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12294 985006007759 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 985006007760 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 985006007761 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 985006007762 putative active site [active] 985006007763 Uncharacterized conserved protein [Function unknown]; Region: COG2353 985006007764 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 985006007765 Strictosidine synthase; Region: Str_synth; pfam03088 985006007766 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 985006007767 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 985006007768 active site residue [active] 985006007769 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 985006007770 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 985006007771 putative substrate binding pocket [chemical binding]; other site 985006007772 AC domain interface; other site 985006007773 catalytic triad [active] 985006007774 AB domain interface; other site 985006007775 interchain disulfide; other site 985006007776 DinB superfamily; Region: DinB_2; pfam12867 985006007777 Collagen binding domain; Region: Collagen_bind; pfam05737 985006007778 Cna protein B-type domain; Region: Cna_B; pfam05738 985006007779 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 985006007780 domain interaction interfaces [polypeptide binding]; other site 985006007781 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 985006007782 domain interaction interfaces [polypeptide binding]; other site 985006007783 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 985006007784 domain interaction interfaces [polypeptide binding]; other site 985006007785 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 985006007786 domain interaction interfaces [polypeptide binding]; other site 985006007787 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 985006007788 domain interaction interfaces [polypeptide binding]; other site 985006007789 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 985006007790 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 985006007791 transmembrane helices; other site 985006007792 Predicted permeases [General function prediction only]; Region: RarD; COG2962 985006007793 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 985006007794 hypothetical protein; Provisional; Region: PRK07758 985006007795 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 985006007796 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 985006007797 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 985006007798 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985006007799 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 985006007800 Walker A/P-loop; other site 985006007801 ATP binding site [chemical binding]; other site 985006007802 Q-loop/lid; other site 985006007803 ABC transporter signature motif; other site 985006007804 Walker B; other site 985006007805 D-loop; other site 985006007806 H-loop/switch region; other site 985006007807 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 985006007808 FtsX-like permease family; Region: FtsX; pfam02687 985006007809 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 985006007810 DNA-binding site [nucleotide binding]; DNA binding site 985006007811 RNA-binding motif; other site 985006007812 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985006007813 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 985006007814 non-specific DNA binding site [nucleotide binding]; other site 985006007815 salt bridge; other site 985006007816 sequence-specific DNA binding site [nucleotide binding]; other site 985006007817 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 985006007818 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 985006007819 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 985006007820 ParB-like nuclease domain; Region: ParBc; pfam02195 985006007821 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 985006007822 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 985006007823 S-adenosylmethionine binding site [chemical binding]; other site 985006007824 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 985006007825 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 985006007826 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 985006007827 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 985006007828 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 985006007829 trmE is a tRNA modification GTPase; Region: trmE; cd04164 985006007830 G1 box; other site 985006007831 GTP/Mg2+ binding site [chemical binding]; other site 985006007832 Switch I region; other site 985006007833 G2 box; other site 985006007834 Switch II region; other site 985006007835 G3 box; other site 985006007836 G4 box; other site 985006007837 G5 box; other site 985006007838 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 985006007839 ribonuclease P; Reviewed; Region: rnpA; PRK00499 985006007840 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399