-- dump date 20120504_162251 -- class Genbank::misc_feature -- table misc_feature_note -- id note 985002000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 985002000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 985002000003 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 985002000004 Walker A motif; other site 985002000005 ATP binding site [chemical binding]; other site 985002000006 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002000007 Walker B motif; other site 985002000008 arginine finger; other site 985002000009 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 985002000010 DnaA box-binding interface [nucleotide binding]; other site 985002000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 985002000012 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 985002000013 putative DNA binding surface [nucleotide binding]; other site 985002000014 dimer interface [polypeptide binding]; other site 985002000015 beta-clamp/clamp loader binding surface; other site 985002000016 beta-clamp/translesion DNA polymerase binding surface; other site 985002000017 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 985002000018 recombination protein F; Reviewed; Region: recF; PRK00064 985002000019 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 985002000020 Walker A/P-loop; other site 985002000021 ATP binding site [chemical binding]; other site 985002000022 Q-loop/lid; other site 985002000023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002000024 ABC transporter signature motif; other site 985002000025 Walker B; other site 985002000026 D-loop; other site 985002000027 H-loop/switch region; other site 985002000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 985002000029 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 985002000030 Mg2+ binding site [ion binding]; other site 985002000031 G-X-G motif; other site 985002000032 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 985002000033 anchoring element; other site 985002000034 dimer interface [polypeptide binding]; other site 985002000035 ATP binding site [chemical binding]; other site 985002000036 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 985002000037 active site 985002000038 putative metal-binding site [ion binding]; other site 985002000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 985002000040 DNA gyrase subunit A; Validated; Region: PRK05560 985002000041 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 in DNA...; Region: TOP4c; cd00187 985002000042 CAP-like domain; other site 985002000043 active site 985002000044 primary dimer interface [polypeptide binding]; other site 985002000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985002000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985002000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985002000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985002000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985002000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985002000051 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 985002000052 putative substrate binding site [chemical binding]; other site 985002000053 putative ATP binding site [chemical binding]; other site 985002000054 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 985002000055 active sites [active] 985002000056 tetramer interface [polypeptide binding]; other site 985002000057 seryl-tRNA synthetase; Provisional; Region: PRK05431 985002000058 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 985002000059 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 bound...; Region: SerRS_core; cd00770 985002000060 dimer interface [polypeptide binding]; other site 985002000061 active site 985002000062 motif 1; other site 985002000063 motif 2; other site 985002000064 motif 3; other site 985002000065 AzlC protein; Region: AzlC; cl00570 985002000066 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 985002000067 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 985002000068 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; cl12031 985002000069 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 985002000070 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 985002000071 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 985002000072 DHH family; Region: DHH; pfam01368 985002000073 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 985002000074 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 985002000075 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 985002000076 replicative DNA helicase; Region: DnaB; TIGR00665 985002000077 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 985002000078 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 985002000079 Walker A motif; other site 985002000080 ATP binding site [chemical binding]; other site 985002000081 Walker B motif; other site 985002000082 DNA binding loops [nucleotide binding] 985002000083 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 985002000084 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 985002000085 GDP-binding site [chemical binding]; other site 985002000086 ACT binding site; other site 985002000087 IMP binding site; other site 985002000088 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985002000089 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 985002000090 active site 985002000091 phosphorylation site [posttranslational modification] 985002000092 intermolecular recognition site; other site 985002000093 dimerization interface [polypeptide binding]; other site 985002000094 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 985002000095 DNA binding site [nucleotide binding] 985002000096 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 985002000097 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 985002000098 dimerization interface [polypeptide binding]; other site 985002000099 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 985002000100 putative active site [active] 985002000101 heme pocket [chemical binding]; other site 985002000102 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 985002000103 dimer interface [polypeptide binding]; other site 985002000104 phosphorylation site [posttranslational modification] 985002000105 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 985002000106 ATP binding site [chemical binding]; other site 985002000107 Mg2+ binding site [ion binding]; other site 985002000108 G-X-G motif; other site 985002000109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 985002000110 YycH protein; Region: YycH; pfam07435 985002000111 YycH protein; Region: YycI; cl02015 985002000112 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002000113 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 985002000114 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 985002000115 putative active site [active] 985002000116 putative metal binding site [ion binding]; other site 985002000117 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985002000118 Gram positive anchor; Region: Gram_pos_anchor; cl15427 985002000119 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 985002000120 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 985002000121 type IVa SCCmec 985002000122 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 985002000123 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 985002000124 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 985002000125 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 985002000126 Integrase core domain; Region: rve; cl01316 985002000127 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 985002000128 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 985002000129 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 985002000130 putative active site [active] 985002000131 catalytic site [active] 985002000132 putative metal binding site [ion binding]; other site 985002000133 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 985002000134 putative active site [active] 985002000135 putative catalytic site [active] 985002000136 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 985002000137 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 985002000138 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 985002000139 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 985002000140 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 985002000141 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 985002000142 DDE superfamily endonuclease; Region: DDE_4; cl15789 985002000143 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985002000144 DDE superfamily endonuclease; Region: DDE_4; cl15789 985002000145 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 985002000146 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 985002000147 Staphylococcus protein of unknown function (DUF950); Region: DUF950; pfam06106 985002000148 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 985002000149 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 985002000150 catalytic residues [active] 985002000151 catalytic nucleophile [active] 985002000152 Presynaptic Site I dimer interface [polypeptide binding]; other site 985002000153 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 985002000154 Synaptic Flat tetramer interface [polypeptide binding]; other site 985002000155 Synaptic Site I dimer interface [polypeptide binding]; other site 985002000156 DNA binding site [nucleotide binding] 985002000157 Recombinase; Region: Recombinase; pfam07508 985002000158 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 985002000159 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 985002000160 Transcription factor/nuclear export subunit protein 2; Region: Tho2; pfam11262 985002000161 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 985002000162 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 985002000163 catalytic residues [active] 985002000164 catalytic nucleophile [active] 985002000165 Recombinase; Region: Recombinase; pfam07508 985002000166 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 985002000167 Domain of unknown function (DUF927); Region: DUF927; cl12098 985002000168 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 985002000169 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 985002000170 Divergent AAA domain; Region: AAA_4; pfam04326 985002000171 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 985002000172 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002000173 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 985002000174 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 985002000175 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 985002000176 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 985002000177 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 985002000178 ATP binding site [chemical binding]; other site 985002000179 putative Mg++ binding site [ion binding]; other site 985002000180 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 985002000181 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 985002000182 CRISPR spacer region 985002000183 CRISPR spacer region 985002000184 CRISPR spacer region 985002000185 CRISPR spacer region 985002000186 CRISPR spacer region 985002000187 CRISPR spacer region 985002000188 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 985002000189 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 985002000190 CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE; Region: cas_TM1811_Csm1; TIGR02578 985002000191 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 985002000192 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cd09647 985002000193 CRISPR/Cas system-associated RAMP superfamily protein Csm3; Region: Csm3_III-A; cd09684 985002000194 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 985002000195 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 985002000196 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl09873 985002000197 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 985002000198 CRISPR spacer region 985002000199 CRISPR spacer region 985002000200 CRISPR spacer region 985002000201 CRISPR spacer region 985002000202 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 985002000203 putative active site [active] 985002000204 putative NTP binding site [chemical binding]; other site 985002000205 putative nucleic acid binding site [nucleotide binding]; other site 985002000206 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 985002000207 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 985002000208 FMN binding site [chemical binding]; other site 985002000209 active site 985002000210 catalytic residues [active] 985002000211 substrate binding site [chemical binding]; other site 985002000212 TfoX N-terminal domain; Region: TfoX_N; cl01167 985002000213 FAD binding domain; Region: FAD_binding_3; pfam01494 985002000214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000216 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985002000217 Helix-turn-helix domains; Region: HTH; cl00088 985002000218 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 985002000219 active site 985002000220 catalytic site [active] 985002000221 putative metal binding site [ion binding]; other site 985002000222 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002000223 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002000224 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002000225 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002000226 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002000227 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985002000228 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985002000229 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 985002000230 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985002000231 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985002000232 metal binding site [ion binding]; metal-binding site 985002000233 dimer interface [polypeptide binding]; other site 985002000234 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 985002000235 putative substrate translocation pore; other site 985002000236 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 985002000237 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 985002000238 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 985002000239 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 985002000240 PhoU domain; Region: PhoU; pfam01895 985002000241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000242 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 985002000243 EamA-like transporter family; Region: EamA; cl01037 985002000244 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 985002000245 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985002000246 DNA-binding site [nucleotide binding]; DNA binding site 985002000247 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 985002000248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002000249 homodimer interface [polypeptide binding]; other site 985002000250 catalytic residue [active] 985002000251 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 985002000252 glycolate transporter; Provisional; Region: PRK09695 985002000253 L-lactate permease; Region: Lactate_perm; cl00701 985002000254 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002000255 B domain; Region: B; pfam02216 985002000256 B domain; Region: B; pfam02216 985002000257 B domain; Region: B; pfam02216 985002000258 translation initiation factor IF-2; Validated; Region: infB; PRK05306 985002000259 B domain; Region: B; pfam02216 985002000260 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985002000261 Helix-turn-helix domains; Region: HTH; cl00088 985002000262 Helix-turn-helix domains; Region: HTH; cl00088 985002000263 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 985002000264 ABC-ATPase subunit interface; other site 985002000265 dimer interface [polypeptide binding]; other site 985002000266 putative PBP binding regions; other site 985002000267 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 985002000268 ABC-ATPase subunit interface; other site 985002000269 dimer interface [polypeptide binding]; other site 985002000270 putative PBP binding regions; other site 985002000271 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 985002000272 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 985002000273 siderophore binding site; other site 985002000274 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 985002000275 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 985002000276 dimer interface [polypeptide binding]; other site 985002000277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002000278 catalytic residue [active] 985002000279 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 985002000280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000281 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985002000282 IucA / IucC family; Region: IucA_IucC; pfam04183 985002000283 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985002000284 drug efflux system protein MdtG; Provisional; Region: PRK09874 985002000285 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 985002000286 putative substrate translocation pore; other site 985002000287 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985002000288 IucA / IucC family; Region: IucA_IucC; pfam04183 985002000289 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985002000290 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985002000291 IucA / IucC family; Region: IucA_IucC; pfam04183 985002000292 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985002000293 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 985002000294 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; cl09155 985002000295 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 985002000296 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 985002000297 dimer interface [polypeptide binding]; other site 985002000298 active site 985002000299 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985002000300 catalytic residues [active] 985002000301 substrate binding site [chemical binding]; other site 985002000302 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 985002000303 ParB-like nuclease domain; Region: ParBc; cl02129 985002000304 acetoin reductase; Validated; Region: PRK08643 985002000305 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 985002000306 NAD binding site [chemical binding]; other site 985002000307 homotetramer interface [polypeptide binding]; other site 985002000308 homodimer interface [polypeptide binding]; other site 985002000309 active site 985002000310 substrate binding site [chemical binding]; other site 985002000311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000312 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 985002000313 NAD(P) binding site [chemical binding]; other site 985002000314 active site 985002000315 Bacterial sugar transferase; Region: Bac_transf; cl00939 985002000316 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985002000317 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 985002000318 putative ADP-binding pocket [chemical binding]; other site 985002000319 MatE; Region: MatE; cl10513 985002000320 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 985002000321 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 985002000322 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 985002000323 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 985002000324 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985002000325 DNA-binding site [nucleotide binding]; DNA binding site 985002000326 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 985002000327 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985002000328 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 985002000329 intersubunit interface [polypeptide binding]; other site 985002000330 active site 985002000331 catalytic residue [active] 985002000332 Sulfatase; Region: Sulfatase; cl10460 985002000333 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 985002000334 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 985002000335 dimer interface [polypeptide binding]; other site 985002000336 conserved gate region; other site 985002000337 putative PBP binding loops; other site 985002000338 ABC-ATPase subunit interface; other site 985002000339 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 985002000340 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 985002000341 dimer interface [polypeptide binding]; other site 985002000342 conserved gate region; other site 985002000343 ABC-ATPase subunit interface; other site 985002000344 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 985002000345 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 985002000346 Walker A/P-loop; other site 985002000347 ATP binding site [chemical binding]; other site 985002000348 Q-loop/lid; other site 985002000349 ABC transporter signature motif; other site 985002000350 Walker B; other site 985002000351 D-loop; other site 985002000352 H-loop/switch region; other site 985002000353 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 985002000354 NMT1-like family; Region: NMT1_2; cl15260 985002000355 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 985002000356 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 985002000357 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 985002000358 active site 985002000359 metal binding site [ion binding]; metal-binding site 985002000360 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985002000361 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 985002000362 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 985002000363 putative catalytic cysteine [active] 985002000364 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 985002000365 putative active site [active] 985002000366 metal binding site [ion binding]; metal-binding site 985002000367 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 985002000368 Chain length determinant protein; Region: Wzz; cl15801 985002000369 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 985002000370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002000371 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 985002000372 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 985002000373 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 985002000374 NAD(P) binding site [chemical binding]; other site 985002000375 homodimer interface [polypeptide binding]; other site 985002000376 substrate binding site [chemical binding]; other site 985002000377 active site 985002000378 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 985002000379 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 985002000380 NAD(P) binding site [chemical binding]; other site 985002000381 homodimer interface [polypeptide binding]; other site 985002000382 substrate binding site [chemical binding]; other site 985002000383 active site 985002000384 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 985002000385 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 985002000386 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 985002000387 putative NAD(P) binding site [chemical binding]; other site 985002000388 active site 985002000389 putative substrate binding site [chemical binding]; other site 985002000390 Cupin domain; Region: Cupin_2; cl09118 985002000391 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 985002000392 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 985002000393 active site 985002000394 homodimer interface [polypeptide binding]; other site 985002000395 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985002000396 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 985002000397 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 985002000398 trimer interface [polypeptide binding]; other site 985002000399 active site 985002000400 substrate binding site [chemical binding]; other site 985002000401 CoA binding site [chemical binding]; other site 985002000402 MatE; Region: MatE; cl10513 985002000403 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985002000404 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 985002000405 Bacterial sugar transferase; Region: Bac_transf; cl00939 985002000406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000407 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 985002000408 NAD(P) binding site [chemical binding]; other site 985002000409 active site 985002000410 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 985002000411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000412 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 985002000413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000414 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 985002000415 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 985002000416 active site 985002000417 homodimer interface [polypeptide binding]; other site 985002000418 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 985002000419 Protein of unknown function (DUF454); Region: DUF454; cl01063 985002000420 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 985002000421 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 985002000422 NAD(P) binding site [chemical binding]; other site 985002000423 catalytic residues [active] 985002000424 Cation efflux family; Region: Cation_efflux; cl00316 985002000425 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 985002000426 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 985002000427 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 985002000428 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 985002000429 Walker A/P-loop; other site 985002000430 ATP binding site [chemical binding]; other site 985002000431 Q-loop/lid; other site 985002000432 ABC transporter signature motif; other site 985002000433 Walker B; other site 985002000434 D-loop; other site 985002000435 H-loop/switch region; other site 985002000436 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 985002000437 NMT1-like family; Region: NMT1_2; cl15260 985002000438 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 985002000439 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 985002000440 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 985002000441 formate dehydrogenase; Provisional; Region: PRK07574 985002000442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000443 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985002000444 peptide synthase; Provisional; Region: PRK12316 985002000445 AMP-binding enzyme; Region: AMP-binding; cl15778 985002000446 Phosphopantetheine attachment site; Region: PP-binding; cl09936 985002000447 peptide synthase; Provisional; Region: PRK12467 985002000448 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 985002000449 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 985002000450 AMP-binding enzyme; Region: AMP-binding; cl15778 985002000451 Phosphopantetheine attachment site; Region: PP-binding; cl09936 985002000452 thioester reductase domain; Region: Thioester-redct; TIGR01746 985002000453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000454 NAD(P) binding site [chemical binding]; other site 985002000455 active site 985002000456 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 985002000457 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 985002000458 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 985002000459 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 985002000460 nucleotide binding site [chemical binding]; other site 985002000461 N-acetyl-L-glutamate binding site [chemical binding]; other site 985002000462 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 985002000463 heterotetramer interface [polypeptide binding]; other site 985002000464 active site pocket [active] 985002000465 cleavage site 985002000466 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 985002000467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000468 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 985002000469 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 985002000470 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 985002000471 inhibitor-cofactor binding pocket; inhibition site 985002000472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002000473 catalytic residue [active] 985002000474 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 985002000475 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985002000476 Helix-turn-helix domains; Region: HTH; cl00088 985002000477 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 985002000478 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 985002000479 Isochorismatase family; Region: Isochorismatase; pfam00857 985002000480 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 985002000481 catalytic triad [active] 985002000482 conserved cis-peptide bond; other site 985002000483 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 985002000484 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 985002000485 dimer interface [polypeptide binding]; other site 985002000486 PYR/PP interface [polypeptide binding]; other site 985002000487 TPP binding site [chemical binding]; other site 985002000488 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 985002000489 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 985002000490 TPP-binding site [chemical binding]; other site 985002000491 dimer interface [polypeptide binding]; other site 985002000492 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 985002000493 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002000494 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 985002000495 active site turn [active] 985002000496 phosphorylation site [posttranslational modification] 985002000497 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 985002000498 HPr interaction site; other site 985002000499 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985002000500 active site 985002000501 phosphorylation site [posttranslational modification] 985002000502 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 985002000503 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 985002000504 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 985002000505 putative active site [active] 985002000506 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 985002000507 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 985002000508 active site turn [active] 985002000509 phosphorylation site [posttranslational modification] 985002000510 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002000511 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985002000512 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 985002000513 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 985002000514 putative active site [active] 985002000515 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 985002000516 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 985002000517 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 985002000518 ATP binding site [chemical binding]; other site 985002000519 putative Mg++ binding site [ion binding]; other site 985002000520 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 985002000521 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 985002000522 Walker A/P-loop; other site 985002000523 ATP binding site [chemical binding]; other site 985002000524 Q-loop/lid; other site 985002000525 ABC transporter signature motif; other site 985002000526 Walker B; other site 985002000527 D-loop; other site 985002000528 H-loop/switch region; other site 985002000529 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985002000530 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 985002000531 Walker A/P-loop; other site 985002000532 ATP binding site [chemical binding]; other site 985002000533 Q-loop/lid; other site 985002000534 ABC transporter signature motif; other site 985002000535 Walker B; other site 985002000536 D-loop; other site 985002000537 H-loop/switch region; other site 985002000538 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985002000539 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985002000540 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 985002000541 dimer interface [polypeptide binding]; other site 985002000542 conserved gate region; other site 985002000543 ABC-ATPase subunit interface; other site 985002000544 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 985002000545 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 985002000546 dimer interface [polypeptide binding]; other site 985002000547 conserved gate region; other site 985002000548 ABC-ATPase subunit interface; other site 985002000549 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 985002000550 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 985002000551 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 985002000552 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 985002000553 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002000554 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 985002000555 Peptidase family M23; Region: Peptidase_M23; pfam01551 985002000556 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 985002000557 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 985002000558 Walker A/P-loop; other site 985002000559 ATP binding site [chemical binding]; other site 985002000560 Q-loop/lid; other site 985002000561 ABC transporter signature motif; other site 985002000562 Walker B; other site 985002000563 D-loop; other site 985002000564 H-loop/switch region; other site 985002000565 TOBE domain; Region: TOBE_2; cl01440 985002000566 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 985002000567 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 985002000568 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 985002000569 dimer interface [polypeptide binding]; other site 985002000570 conserved gate region; other site 985002000571 ABC-ATPase subunit interface; other site 985002000572 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 985002000573 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 985002000574 dimer interface [polypeptide binding]; other site 985002000575 conserved gate region; other site 985002000576 putative PBP binding loops; other site 985002000577 ABC-ATPase subunit interface; other site 985002000578 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985002000579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000580 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 985002000581 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985002000582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000583 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 985002000584 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 985002000585 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 985002000586 Phospholipid methyltransferase; Region: PEMT; cl00763 985002000587 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 985002000588 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 985002000589 putative substrate translocation pore; other site 985002000590 Response regulator receiver domain; Region: Response_reg; pfam00072 985002000591 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 985002000592 active site 985002000593 phosphorylation site [posttranslational modification] 985002000594 intermolecular recognition site; other site 985002000595 dimerization interface [polypeptide binding]; other site 985002000596 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985002000597 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985002000598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985002000599 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985002000600 Histidine kinase; Region: His_kinase; pfam06580 985002000601 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 985002000602 ATP binding site [chemical binding]; other site 985002000603 Mg2+ binding site [ion binding]; other site 985002000604 G-X-G motif; other site 985002000605 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 985002000606 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 985002000607 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 985002000608 Pyruvate formate lyase 1; Region: PFL1; cd01678 985002000609 coenzyme A binding site [chemical binding]; other site 985002000610 active site 985002000611 catalytic residues [active] 985002000612 glycine loop; other site 985002000613 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 985002000614 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 985002000615 FeS/SAM binding site; other site 985002000616 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 985002000617 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 985002000618 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 985002000619 putative active site [active] 985002000620 catalytic site [active] 985002000621 putative metal binding site [ion binding]; other site 985002000622 Staphylococcal complement inhibitor SCIN; Region: CompInhib_SCIN; pfam11546 985002000623 Staphylococcus aureus coagulase; Region: Coagulase; pfam08764 985002000624 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 985002000625 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 985002000626 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 985002000627 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 985002000628 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 985002000629 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 985002000630 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 985002000631 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 985002000632 dimer interface [polypeptide binding]; other site 985002000633 active site 985002000634 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 985002000635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002000636 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 985002000637 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 985002000638 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 985002000639 substrate binding site [chemical binding]; other site 985002000640 oxyanion hole (OAH) forming residues; other site 985002000641 trimer interface [polypeptide binding]; other site 985002000642 acyl-coenzyme A oxidase; Region: PLN02526 985002000643 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 985002000644 active site 985002000645 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 985002000646 AMP-binding enzyme; Region: AMP-binding; cl15778 985002000647 AMP-binding enzyme; Region: AMP-binding; cl15778 985002000648 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 985002000649 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 985002000650 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 985002000651 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 985002000652 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 985002000653 catalytic triad [active] 985002000654 Protease prsW family; Region: PrsW-protease; cl15823 985002000655 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985002000656 Helix-turn-helix domains; Region: HTH; cl00088 985002000657 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 985002000658 atypical (a) SDRs, subgroup 6; Region: SDR_a6; cd05267 985002000659 NADH(P)-binding; Region: NAD_binding_10; pfam13460 985002000660 putative NAD(P) binding site [chemical binding]; other site 985002000661 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 985002000662 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; cl12031 985002000663 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 985002000664 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 985002000665 Protein of unknown function, DUF488; Region: DUF488; cl01246 985002000666 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 985002000667 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 985002000668 heme-binding site [chemical binding]; other site 985002000669 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 985002000670 FAD binding pocket [chemical binding]; other site 985002000671 FAD binding motif [chemical binding]; other site 985002000672 phosphate binding motif [ion binding]; other site 985002000673 beta-alpha-beta structure motif; other site 985002000674 NAD binding pocket [chemical binding]; other site 985002000675 Heme binding pocket [chemical binding]; other site 985002000676 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 985002000677 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 985002000678 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985002000679 NAD binding site [chemical binding]; other site 985002000680 dimer interface [polypeptide binding]; other site 985002000681 substrate binding site [chemical binding]; other site 985002000682 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 985002000683 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002000684 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 985002000685 active site turn [active] 985002000686 phosphorylation site [posttranslational modification] 985002000687 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 985002000688 active site 985002000689 tetramer interface [polypeptide binding]; other site 985002000690 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985002000691 Helix-turn-helix domains; Region: HTH; cl00088 985002000692 PRD domain; Region: PRD; cl15445 985002000693 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 985002000694 active site 985002000695 P-loop; other site 985002000696 phosphorylation site [posttranslational modification] 985002000697 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 985002000698 active site 985002000699 phosphorylation site [posttranslational modification] 985002000700 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 985002000701 active site 985002000702 phosphorylation site [posttranslational modification] 985002000703 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 985002000704 active site 985002000705 P-loop; other site 985002000706 phosphorylation site [posttranslational modification] 985002000707 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 985002000708 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 985002000709 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 985002000710 putative NAD(P) binding site [chemical binding]; other site 985002000711 catalytic Zn binding site [ion binding]; other site 985002000712 structural Zn binding site [ion binding]; other site 985002000713 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 985002000714 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 985002000715 putative NAD(P) binding site [chemical binding]; other site 985002000716 catalytic Zn binding site [ion binding]; other site 985002000717 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 985002000718 substrate binding site; other site 985002000719 dimer interface; other site 985002000720 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 985002000721 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 985002000722 putative NAD(P) binding site [chemical binding]; other site 985002000723 putative catalytic Zn binding site [ion binding]; other site 985002000724 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 985002000725 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 985002000726 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 985002000727 substrate binding site; other site 985002000728 dimer interface; other site 985002000729 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 985002000730 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 985002000731 putative NAD(P) binding site [chemical binding]; other site 985002000732 putative catalytic Zn binding site [ion binding]; other site 985002000733 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 985002000734 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 985002000735 active site 985002000736 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 985002000737 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 985002000738 GAF domain; Region: GAF; cl15785 985002000739 Histidine kinase; Region: His_kinase; pfam06580 985002000740 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 985002000741 two-component response regulator; Provisional; Region: PRK14084 985002000742 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 985002000743 active site 985002000744 phosphorylation site [posttranslational modification] 985002000745 intermolecular recognition site; other site 985002000746 dimerization interface [polypeptide binding]; other site 985002000747 LytTr DNA-binding domain; Region: LytTR; cl04498 985002000748 LrgA family; Region: LrgA; cl00608 985002000749 LrgB-like family; Region: LrgB; cl00596 985002000750 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 985002000751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985002000752 DNA-binding site [nucleotide binding]; DNA binding site 985002000753 UTRA domain; Region: UTRA; cl01230 985002000754 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; cl00164 985002000755 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; cl00162 985002000756 HPr interaction site; other site 985002000757 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985002000758 active site 985002000759 phosphorylation site [posttranslational modification] 985002000760 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985002000761 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 985002000762 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 985002000763 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 985002000764 substrate binding site [chemical binding]; other site 985002000765 dimer interface [polypeptide binding]; other site 985002000766 ATP binding site [chemical binding]; other site 985002000767 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 985002000768 Sugar transport protein; Region: Sugar_transport; pfam06800 985002000769 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985002000770 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985002000771 DNA binding site [nucleotide binding] 985002000772 domain linker motif; other site 985002000773 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 985002000774 dimerization interface [polypeptide binding]; other site 985002000775 ligand binding site [chemical binding]; other site 985002000776 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 985002000777 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 985002000778 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 985002000779 active site 985002000780 Surface antigen [General function prediction only]; Region: COG3942 985002000781 Peptidase family M23; Region: Peptidase_M23; pfam01551 985002000782 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002000783 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 985002000784 Walker A/P-loop; other site 985002000785 ATP binding site [chemical binding]; other site 985002000786 Q-loop/lid; other site 985002000787 ABC transporter signature motif; other site 985002000788 Walker B; other site 985002000789 D-loop; other site 985002000790 H-loop/switch region; other site 985002000791 Surface antigen [General function prediction only]; Region: COG3942 985002000792 NlpC/P60 family; Region: NLPC_P60; cl11438 985002000793 Proteins of 100 residues with WXG; Region: WXG100; cl02005 985002000794 Predicted membrane protein [Function unknown]; Region: COG1511 985002000795 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 985002000796 ABC-2 type transporter; Region: ABC2_membrane; cl11417 985002000797 WXG100 protein secretion system (Wss), protein EssA; Region: EssA; cl11266 985002000798 Ubiquitin-like proteins; Region: UBQ; cl00155 985002000799 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 985002000800 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 985002000801 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 985002000802 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002000803 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002000804 Proteins of 100 residues with WXG; Region: WXG100; cl02005 985002000805 Uncharacterized conserved protein [Function unknown]; Region: COG5444 985002000806 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 985002000807 Protein of unknown function, DUF600; Region: DUF600; cl04640 985002000808 Protein of unknown function, DUF600; Region: DUF600; cl04640 985002000809 Protein of unknown function, DUF600; Region: DUF600; cl04640 985002000810 Protein of unknown function, DUF600; Region: DUF600; cl04640 985002000811 Protein of unknown function, DUF600; Region: DUF600; cl04640 985002000812 Protein of unknown function, DUF600; Region: DUF600; cl04640 985002000813 Protein of unknown function, DUF600; Region: DUF600; cl04640 985002000814 Protein of unknown function, DUF600; Region: DUF600; cl04640 985002000815 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 985002000816 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 985002000817 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 985002000818 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 985002000819 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 985002000820 FtsX-like permease family; Region: FtsX; cl15850 985002000821 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985002000822 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 985002000823 Walker A/P-loop; other site 985002000824 ATP binding site [chemical binding]; other site 985002000825 Q-loop/lid; other site 985002000826 ABC transporter signature motif; other site 985002000827 Walker B; other site 985002000828 D-loop; other site 985002000829 H-loop/switch region; other site 985002000830 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 985002000831 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002000832 Helix-turn-helix domains; Region: HTH; cl00088 985002000833 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 985002000834 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 985002000835 substrate binding site [chemical binding]; other site 985002000836 ATP binding site [chemical binding]; other site 985002000837 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 985002000838 nucleoside transporter; Region: nupC; TIGR00804 985002000839 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 985002000840 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 985002000841 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 985002000842 putative transporter; Provisional; Region: PRK10484 985002000843 Na binding site [ion binding]; other site 985002000844 N-acetylneuraminate lyase; Region: nanA; TIGR00683 985002000845 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 985002000846 inhibitor site; inhibition site 985002000847 active site 985002000848 dimer interface [polypeptide binding]; other site 985002000849 catalytic residue [active] 985002000850 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985002000851 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 985002000852 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985002000853 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 985002000854 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 985002000855 putative active site [active] 985002000856 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 985002000857 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 985002000858 putative active site cavity [active] 985002000859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 985002000860 Nucleoside recognition; Region: Gate; cl00486 985002000861 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 985002000862 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; cl12031 985002000863 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 985002000864 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; cl12031 985002000865 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 985002000866 putative active site [active] 985002000867 putative FMN binding site [chemical binding]; other site 985002000868 putative substrate binding site [chemical binding]; other site 985002000869 putative catalytic residue [active] 985002000870 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 985002000871 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 985002000872 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 985002000873 lipoyl attachment site [posttranslational modification]; other site 985002000874 Helix-turn-helix domains; Region: HTH; cl00088 985002000875 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 985002000876 putative ADP-ribose binding site [chemical binding]; other site 985002000877 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 985002000878 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 985002000879 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 985002000880 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 985002000881 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 985002000882 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 985002000883 NADP binding site [chemical binding]; other site 985002000884 putative substrate binding site [chemical binding]; other site 985002000885 active site 985002000886 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 985002000887 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 985002000888 active site 985002000889 P-loop; other site 985002000890 phosphorylation site [posttranslational modification] 985002000891 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 985002000892 active site 985002000893 phosphorylation site [posttranslational modification] 985002000894 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985002000895 Helix-turn-helix domains; Region: HTH; cl00088 985002000896 Helix-turn-helix domains; Region: HTH; cl00088 985002000897 PRD domain; Region: PRD; cl15445 985002000898 PRD domain; Region: PRD; cl15445 985002000899 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 985002000900 active site 985002000901 P-loop; other site 985002000902 phosphorylation site [posttranslational modification] 985002000903 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 985002000904 active site 985002000905 phosphorylation site [posttranslational modification] 985002000906 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985002000907 Helix-turn-helix domains; Region: HTH; cl00088 985002000908 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 985002000909 MatE; Region: MatE; cl10513 985002000910 MatE; Region: MatE; cl10513 985002000911 MepB protein; Region: MepB; cl01985 985002000912 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 985002000913 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 985002000914 putative substrate translocation pore; other site 985002000915 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 985002000916 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 985002000917 Zn binding site [ion binding]; other site 985002000918 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 985002000919 Zn binding site [ion binding]; other site 985002000920 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 985002000921 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 985002000922 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 985002000923 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 985002000924 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 985002000925 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985002000926 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002000927 Imelysin; Region: Peptidase_M75; cl09159 985002000928 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 985002000929 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 985002000930 Iron permease FTR1 family; Region: FTR1; cl00475 985002000931 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 985002000932 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 985002000933 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 985002000934 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 985002000935 non-specific DNA binding site [nucleotide binding]; other site 985002000936 salt bridge; other site 985002000937 sequence-specific DNA binding site [nucleotide binding]; other site 985002000938 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 985002000939 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985002000940 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 985002000941 Walker A/P-loop; other site 985002000942 ATP binding site [chemical binding]; other site 985002000943 Q-loop/lid; other site 985002000944 ABC transporter signature motif; other site 985002000945 Walker B; other site 985002000946 D-loop; other site 985002000947 H-loop/switch region; other site 985002000948 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 985002000949 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 985002000950 putative acyltransferase; Provisional; Region: PRK05790 985002000951 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 985002000952 dimer interface [polypeptide binding]; other site 985002000953 active site 985002000954 Putative cyclase; Region: Cyclase; cl00814 985002000955 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 985002000956 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 985002000957 THF binding site; other site 985002000958 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 985002000959 substrate binding site [chemical binding]; other site 985002000960 THF binding site; other site 985002000961 zinc-binding site [ion binding]; other site 985002000962 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 985002000963 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 985002000964 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 985002000965 FAD binding site [chemical binding]; other site 985002000966 cystathionine beta-lyase; Provisional; Region: PRK08064 985002000967 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 985002000968 homodimer interface [polypeptide binding]; other site 985002000969 substrate-cofactor binding pocket; other site 985002000970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002000971 catalytic residue [active] 985002000972 cystathionine gamma-synthase; Reviewed; Region: PRK08247 985002000973 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 985002000974 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985002000975 catalytic residue [active] 985002000976 ParB-like partition proteins; Region: parB_part; TIGR00180 985002000977 ParB-like nuclease domain; Region: ParBc; cl02129 985002000978 Mechanosensitive ion channel; Region: MS_channel; pfam00924 985002000979 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 985002000980 GTP-binding protein YchF; Reviewed; Region: PRK09601 985002000981 YchF GTPase; Region: YchF; cd01900 985002000982 G1 box; other site 985002000983 GTP/Mg2+ binding site [chemical binding]; other site 985002000984 Switch I region; other site 985002000985 G2 box; other site 985002000986 Switch II region; other site 985002000987 G3 box; other site 985002000988 G4 box; other site 985002000989 G5 box; other site 985002000990 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 985002000991 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 985002000992 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 985002000993 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 985002000994 dimer interface [polypeptide binding]; other site 985002000995 ssDNA binding site [nucleotide binding]; other site 985002000996 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985002000997 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 985002000998 Abi-like protein; Region: Abi_2; cl01988 985002000999 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 985002001000 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 985002001001 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002001002 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 985002001003 Predicted membrane protein [Function unknown]; Region: COG3212 985002001004 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 985002001005 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 985002001006 non-specific DNA binding site [nucleotide binding]; other site 985002001007 salt bridge; other site 985002001008 sequence-specific DNA binding site [nucleotide binding]; other site 985002001009 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 985002001010 catalytic core [active] 985002001011 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 985002001012 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 985002001013 catalytic residue [active] 985002001014 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 985002001015 catalytic residues [active] 985002001016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002001017 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985002001018 peroxiredoxin; Region: AhpC; TIGR03137 985002001019 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 985002001020 dimer interface [polypeptide binding]; other site 985002001021 decamer (pentamer of dimers) interface [polypeptide binding]; other site 985002001022 catalytic triad [active] 985002001023 peroxidatic and resolving cysteines [active] 985002001024 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 985002001025 dimer interface [polypeptide binding]; other site 985002001026 FMN binding site [chemical binding]; other site 985002001027 NADPH bind site [chemical binding]; other site 985002001028 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 985002001029 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 985002001030 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985002001031 active site 985002001032 xanthine permease; Region: pbuX; TIGR03173 985002001033 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 985002001034 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; cl09108 985002001035 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 key...; Region: CBS_pair_IMPDH; cd04601 985002001036 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 the guanine...; Region: IMPDH; cd00381 985002001037 active site 985002001038 GMP synthase; Reviewed; Region: guaA; PRK00074 985002001039 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 985002001040 AMP/PPi binding site [chemical binding]; other site 985002001041 candidate oxyanion hole; other site 985002001042 catalytic triad [active] 985002001043 potential glutamine specificity residues [chemical binding]; other site 985002001044 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 985002001045 ATP Binding subdomain [chemical binding]; other site 985002001046 Ligand Binding sites [chemical binding]; other site 985002001047 Dimerization subdomain; other site 985002001048 Terminase small subunit; Region: Terminase_2; cl01513 985002001049 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 985002001050 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 985002001051 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 985002001052 NADP binding site [chemical binding]; other site 985002001053 superantigen-like protein; Reviewed; Region: PRK13037 985002001054 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985002001055 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002001056 superantigen-like protein; Reviewed; Region: PRK13041 985002001057 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985002001058 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002001059 superantigen-like protein; Reviewed; Region: PRK13042 985002001060 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985002001061 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002001062 superantigen-like protein 5; Reviewed; Region: PRK13035 985002001063 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985002001064 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002001065 superantigen-like protein 7; Reviewed; Region: PRK13346 985002001066 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985002001067 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002001068 superantigen-like protein 5; Reviewed; Region: PRK13035 985002001069 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985002001070 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002001071 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 985002001072 HsdM N-terminal domain; Region: HsdM_N; pfam12161 985002001073 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; cl16911 985002001074 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 985002001075 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 985002001076 superantigen-like protein; Reviewed; Region: PRK13036 985002001077 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 985002001078 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002001079 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002001080 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002001081 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002001082 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002001083 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002001084 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002001085 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002001086 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002001087 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002001088 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002001089 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002001090 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 985002001091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002001092 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 985002001093 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 985002001094 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 985002001095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 985002001096 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 985002001097 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 985002001098 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985002001099 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002001100 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 985002001101 active site 985002001102 Esterase/lipase [General function prediction only]; Region: COG1647 985002001103 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; cl12031 985002001104 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 985002001105 Na2 binding site [ion binding]; other site 985002001106 putative substrate binding site 1 [chemical binding]; other site 985002001107 Na binding site 1 [ion binding]; other site 985002001108 putative substrate binding site 2 [chemical binding]; other site 985002001109 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 985002001110 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 985002001111 dimer interface [polypeptide binding]; other site 985002001112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002001113 catalytic residue [active] 985002001114 cystathionine beta-lyase; Provisional; Region: PRK07671 985002001115 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 985002001116 homodimer interface [polypeptide binding]; other site 985002001117 substrate-cofactor binding pocket; other site 985002001118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002001119 catalytic residue [active] 985002001120 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 985002001121 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 985002001122 Walker A/P-loop; other site 985002001123 ATP binding site [chemical binding]; other site 985002001124 Q-loop/lid; other site 985002001125 ABC transporter signature motif; other site 985002001126 Walker B; other site 985002001127 D-loop; other site 985002001128 H-loop/switch region; other site 985002001129 NIL domain; Region: NIL; cl09633 985002001130 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 985002001131 dimer interface [polypeptide binding]; other site 985002001132 conserved gate region; other site 985002001133 ABC-ATPase subunit interface; other site 985002001134 NMT1-like family; Region: NMT1_2; cl15260 985002001135 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985002001136 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985002001137 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985002001138 NlpC/P60 family; Region: NLPC_P60; cl11438 985002001139 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 985002001140 nudix motif; other site 985002001141 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 985002001142 YibE/F-like protein; Region: YibE_F; cl02259 985002001143 YibE/F-like protein; Region: YibE_F; cl02259 985002001144 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985002001145 Helix-turn-helix domains; Region: HTH; cl00088 985002001146 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 985002001147 dimerization interface [polypeptide binding]; other site 985002001148 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 985002001149 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 985002001150 active site 985002001151 dimer interface [polypeptide binding]; other site 985002001152 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 985002001153 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 985002001154 active site 985002001155 FMN binding site [chemical binding]; other site 985002001156 substrate binding site [chemical binding]; other site 985002001157 3Fe-4S cluster binding site [ion binding]; other site 985002001158 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 985002001159 domain interface; other site 985002001160 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 985002001161 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 985002001162 NAD(P) binding site [chemical binding]; other site 985002001163 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 985002001164 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 985002001165 active site turn [active] 985002001166 phosphorylation site [posttranslational modification] 985002001167 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002001168 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 985002001169 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 985002001170 Ca binding site [ion binding]; other site 985002001171 active site 985002001172 catalytic site [active] 985002001173 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 985002001174 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985002001175 DNA-binding site [nucleotide binding]; DNA binding site 985002001176 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 985002001177 UTRA domain; Region: UTRA; cl01230 985002001178 Predicted acetyltransferase [General function prediction only]; Region: COG3153 985002001179 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002001180 Coenzyme A binding pocket [chemical binding]; other site 985002001181 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 985002001182 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 985002001183 Walker A motif; other site 985002001184 ATP binding site [chemical binding]; other site 985002001185 Walker B motif; other site 985002001186 arginine finger; other site 985002001187 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 985002001188 recombination protein RecR; Reviewed; Region: recR; PRK00076 985002001189 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 985002001190 RecR protein; Region: RecR; pfam02132 985002001191 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 985002001192 putative active site [active] 985002001193 putative metal-binding site [ion binding]; other site 985002001194 tetramer interface [polypeptide binding]; other site 985002001195 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 985002001196 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 985002001197 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985002001198 catalytic residue [active] 985002001199 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 985002001200 thymidylate kinase; Validated; Region: tmk; PRK00698 985002001201 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 985002001202 TMP-binding site; other site 985002001203 ATP-binding site [chemical binding]; other site 985002001204 Nitrogen regulatory protein P-II; Region: P-II; cl00412 985002001205 DNA polymerase III subunit delta'; Validated; Region: PRK08058 985002001206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002001207 PSP1 C-terminal conserved region; Region: PSP1; cl00770 985002001208 TSC-22/dip/bun family; Region: TSC22; cl01853 985002001209 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 985002001210 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 985002001211 S-adenosylmethionine binding site [chemical binding]; other site 985002001212 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 985002001213 GIY-YIG motif/motif A; other site 985002001214 putative active site [active] 985002001215 putative metal binding site [ion binding]; other site 985002001216 Predicted methyltransferases [General function prediction only]; Region: COG0313 985002001217 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 985002001218 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 985002001219 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 985002001220 active site 985002001221 HIGH motif; other site 985002001222 KMSKS motif; other site 985002001223 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 985002001224 tRNA binding surface [nucleotide binding]; other site 985002001225 anticodon binding site; other site 985002001226 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 985002001227 dimer interface [polypeptide binding]; other site 985002001228 putative tRNA-binding site [nucleotide binding]; other site 985002001229 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 985002001230 active site 985002001231 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 985002001232 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 985002001233 putative active site [active] 985002001234 putative metal binding site [ion binding]; other site 985002001235 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 985002001236 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; cl16911 985002001237 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 985002001238 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 985002001239 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 985002001240 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985002001241 pur operon repressor; Provisional; Region: PRK09213 985002001242 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 985002001243 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985002001244 active site 985002001245 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 985002001246 homotrimer interaction site [polypeptide binding]; other site 985002001247 putative active site [active] 985002001248 SpoVG; Region: SpoVG; cl00915 985002001249 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 985002001250 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 985002001251 Substrate binding site; other site 985002001252 Mg++ binding site; other site 985002001253 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 985002001254 active site 985002001255 substrate binding site [chemical binding]; other site 985002001256 CoA binding site [chemical binding]; other site 985002001257 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 985002001258 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 985002001259 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985002001260 active site 985002001261 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 985002001262 5S rRNA interface [nucleotide binding]; other site 985002001263 CTC domain interface [polypeptide binding]; other site 985002001264 L16 interface [polypeptide binding]; other site 985002001265 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 985002001266 putative active site [active] 985002001267 catalytic residue [active] 985002001268 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 985002001269 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 985002001270 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 985002001271 ATP binding site [chemical binding]; other site 985002001272 putative Mg++ binding site [ion binding]; other site 985002001273 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 985002001274 nucleotide binding region [chemical binding]; other site 985002001275 ATP-binding site [chemical binding]; other site 985002001276 TRCF domain; Region: TRCF; cl04088 985002001277 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 985002001278 MatE; Region: MatE; cl10513 985002001279 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 985002001280 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 985002001281 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 985002001282 homodimer interface [polypeptide binding]; other site 985002001283 metal binding site [ion binding]; metal-binding site 985002001284 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 985002001285 Septum formation initiator; Region: DivIC; cl11433 985002001286 hypothetical protein; Provisional; Region: PRK08582 985002001287 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 985002001288 RNA binding site [nucleotide binding]; other site 985002001289 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 985002001290 Ligand Binding Site [chemical binding]; other site 985002001291 B3/4 domain; Region: B3_4; cl11458 985002001292 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985002001293 active site 985002001294 FtsH Extracellular; Region: FtsH_ext; pfam06480 985002001295 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 985002001296 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 985002001297 Walker A motif; other site 985002001298 ATP binding site [chemical binding]; other site 985002001299 Walker B motif; other site 985002001300 arginine finger; other site 985002001301 Peptidase family M41; Region: Peptidase_M41; pfam01434 985002001302 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 985002001303 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 985002001304 dimerization interface [polypeptide binding]; other site 985002001305 domain crossover interface; other site 985002001306 redox-dependent activation switch; other site 985002001307 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 985002001308 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 985002001309 dimer interface [polypeptide binding]; other site 985002001310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002001311 catalytic residue [active] 985002001312 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 985002001313 dihydropteroate synthase; Region: DHPS; TIGR01496 985002001314 substrate binding pocket [chemical binding]; other site 985002001315 dimer interface [polypeptide binding]; other site 985002001316 inhibitor binding site; inhibition site 985002001317 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 985002001318 homooctamer interface [polypeptide binding]; other site 985002001319 active site 985002001320 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 985002001321 catalytic center binding site [active] 985002001322 ATP binding site [chemical binding]; other site 985002001323 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 985002001324 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 985002001325 dimer interface [polypeptide binding]; other site 985002001326 putative anticodon binding site; other site 985002001327 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 985002001328 motif 1; other site 985002001329 active site 985002001330 motif 2; other site 985002001331 motif 3; other site 985002001332 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 985002001333 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985002001334 DNA-binding site [nucleotide binding]; DNA binding site 985002001335 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 985002001336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002001337 homodimer interface [polypeptide binding]; other site 985002001338 catalytic residue [active] 985002001339 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 985002001340 active site 985002001341 multimer interface [polypeptide binding]; other site 985002001342 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 985002001343 predicted active site [active] 985002001344 catalytic triad [active] 985002001345 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 985002001346 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 985002001347 Nucleoside recognition; Region: Gate; cl00486 985002001348 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 985002001349 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 985002001350 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 985002001351 UvrB/uvrC motif; Region: UVR; pfam02151 985002001352 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 985002001353 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 985002001354 ADP binding site [chemical binding]; other site 985002001355 phosphagen binding site; other site 985002001356 substrate specificity loop; other site 985002001357 Clp protease ATP binding subunit; Region: clpC; CHL00095 985002001358 Clp amino terminal domain; Region: Clp_N; pfam02861 985002001359 Clp amino terminal domain; Region: Clp_N; pfam02861 985002001360 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 985002001361 Walker A motif; other site 985002001362 ATP binding site [chemical binding]; other site 985002001363 Walker B motif; other site 985002001364 arginine finger; other site 985002001365 UvrB/uvrC motif; Region: UVR; pfam02151 985002001366 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 985002001367 Walker A motif; other site 985002001368 ATP binding site [chemical binding]; other site 985002001369 Walker B motif; other site 985002001370 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 985002001371 DNA repair protein RadA; Provisional; Region: PRK11823 985002001372 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 985002001373 Walker A motif/ATP binding site; other site 985002001374 ATP binding site [chemical binding]; other site 985002001375 Walker B motif; other site 985002001376 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 985002001377 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 985002001378 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 985002001379 putative active site [active] 985002001380 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 985002001381 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 985002001382 active site 985002001383 HIGH motif; other site 985002001384 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 985002001385 active site 985002001386 KMSKS motif; other site 985002001387 serine O-acetyltransferase; Region: cysE; TIGR01172 985002001388 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 985002001389 trimer interface [polypeptide binding]; other site 985002001390 active site 985002001391 substrate binding site [chemical binding]; other site 985002001392 CoA binding site [chemical binding]; other site 985002001393 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 985002001394 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 985002001395 active site 985002001396 HIGH motif; other site 985002001397 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 985002001398 KMSKS motif; other site 985002001399 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 985002001400 tRNA binding surface [nucleotide binding]; other site 985002001401 anticodon binding site; other site 985002001402 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 985002001403 active site 985002001404 metal binding site [ion binding]; metal-binding site 985002001405 dimerization interface [polypeptide binding]; other site 985002001406 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 985002001407 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 985002001408 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 985002001409 YacP-like NYN domain; Region: NYN_YacP; cl01491 985002001410 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 985002001411 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985002001412 Helix-turn-helix domains; Region: HTH; cl00088 985002001413 DNA binding residues [nucleotide binding] 985002001414 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 985002001415 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 985002001416 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 985002001417 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 985002001418 putative homodimer interface [polypeptide binding]; other site 985002001419 KOW motif; Region: KOW; cl00354 985002001420 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 985002001421 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 985002001422 23S rRNA interface [nucleotide binding]; other site 985002001423 L7/L12 interface [polypeptide binding]; other site 985002001424 putative thiostrepton binding site; other site 985002001425 L25 interface [polypeptide binding]; other site 985002001426 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 985002001427 mRNA/rRNA interface [nucleotide binding]; other site 985002001428 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 985002001429 23S rRNA interface [nucleotide binding]; other site 985002001430 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 985002001431 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 985002001432 peripheral dimer interface [polypeptide binding]; other site 985002001433 core dimer interface [polypeptide binding]; other site 985002001434 L10 interface [polypeptide binding]; other site 985002001435 L11 interface [polypeptide binding]; other site 985002001436 putative EF-Tu interaction site [polypeptide binding]; other site 985002001437 putative EF-G interaction site [polypeptide binding]; other site 985002001438 Methyltransferase domain; Region: Methyltransf_31; pfam13847 985002001439 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 985002001440 S-adenosylmethionine binding site [chemical binding]; other site 985002001441 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; cl04593 985002001442 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 985002001443 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; cl04593 985002001444 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 985002001445 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; cl04593 985002001446 RPB12 interaction site [polypeptide binding]; other site 985002001447 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 985002001448 RPB10 interaction site [polypeptide binding]; other site 985002001449 RPB1 interaction site [polypeptide binding]; other site 985002001450 RPB11 interaction site [polypeptide binding]; other site 985002001451 RPB3 interaction site [polypeptide binding]; other site 985002001452 RPB12 interaction site [polypeptide binding]; other site 985002001453 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 985002001454 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 985002001455 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 985002001456 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 985002001457 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 985002001458 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 985002001459 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 985002001460 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 985002001461 G-loop; other site 985002001462 DNA binding site [nucleotide binding] 985002001463 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 985002001464 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 985002001465 S17 interaction site [polypeptide binding]; other site 985002001466 S8 interaction site; other site 985002001467 16S rRNA interaction site [nucleotide binding]; other site 985002001468 streptomycin interaction site [chemical binding]; other site 985002001469 23S rRNA interaction site [nucleotide binding]; other site 985002001470 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 985002001471 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 985002001472 elongation factor G; Reviewed; Region: PRK00007 985002001473 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 985002001474 G1 box; other site 985002001475 putative GEF interaction site [polypeptide binding]; other site 985002001476 GTP/Mg2+ binding site [chemical binding]; other site 985002001477 Switch I region; other site 985002001478 G2 box; other site 985002001479 G3 box; other site 985002001480 Switch II region; other site 985002001481 G4 box; other site 985002001482 G5 box; other site 985002001483 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 985002001484 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 985002001485 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 985002001486 elongation factor Tu; Reviewed; Region: PRK00049 985002001487 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 985002001488 G1 box; other site 985002001489 GEF interaction site [polypeptide binding]; other site 985002001490 GTP/Mg2+ binding site [chemical binding]; other site 985002001491 Switch I region; other site 985002001492 G2 box; other site 985002001493 G3 box; other site 985002001494 Switch II region; other site 985002001495 G4 box; other site 985002001496 G5 box; other site 985002001497 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 985002001498 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 985002001499 Antibiotic Binding Site [chemical binding]; other site 985002001500 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985002001501 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985002001502 metal binding site [ion binding]; metal-binding site 985002001503 dimer interface [polypeptide binding]; other site 985002001504 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 985002001505 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 985002001506 substrate-cofactor binding pocket; other site 985002001507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002001508 catalytic residue [active] 985002001509 chaperone protein HchA; Provisional; Region: PRK04155 985002001510 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 985002001511 conserved cys residue [active] 985002001512 ribulokinase; Provisional; Region: PRK04123 985002001513 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 985002001514 putative N- and C-terminal domain interface [polypeptide binding]; other site 985002001515 putative active site [active] 985002001516 putative MgATP binding site [chemical binding]; other site 985002001517 catalytic site [active] 985002001518 metal binding site [ion binding]; metal-binding site 985002001519 carbohydrate binding site [chemical binding]; other site 985002001520 homodimer interface [polypeptide binding]; other site 985002001521 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 985002001522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002001523 NAD(P) binding site [chemical binding]; other site 985002001524 active site 985002001525 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 985002001526 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 985002001527 homodimer interface [polypeptide binding]; other site 985002001528 substrate-cofactor binding pocket; other site 985002001529 catalytic residue [active] 985002001530 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 985002001531 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 985002001532 motif II; other site 985002001533 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 985002001534 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 985002001535 Substrate-binding site [chemical binding]; other site 985002001536 Substrate specificity [chemical binding]; other site 985002001537 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 985002001538 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 985002001539 Substrate-binding site [chemical binding]; other site 985002001540 Substrate specificity [chemical binding]; other site 985002001541 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 985002001542 nucleoside/Zn binding site; other site 985002001543 dimer interface [polypeptide binding]; other site 985002001544 catalytic motif [active] 985002001545 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 985002001546 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985002001547 active site 985002001548 motif I; other site 985002001549 motif II; other site 985002001550 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 985002001551 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 985002001552 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002001553 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985002001554 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 985002001555 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 985002001556 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002001557 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 985002001558 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985002001559 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 985002001560 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 985002001561 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 985002001562 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 985002001563 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 985002001564 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002001565 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985002001566 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 985002001567 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 985002001568 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 985002001569 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 985002001570 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 985002001571 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 985002001572 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 985002001573 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 985002001574 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 985002001575 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 985002001576 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 985002001577 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 985002001578 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 985002001579 active site 985002001580 trimer interface [polypeptide binding]; other site 985002001581 allosteric site; other site 985002001582 active site lid [active] 985002001583 hexamer (dimer of trimers) interface [polypeptide binding]; other site 985002001584 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 985002001585 active site 985002001586 dimer interface [polypeptide binding]; other site 985002001587 magnesium binding site [ion binding]; other site 985002001588 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 985002001589 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 985002001590 tetramer interface [polypeptide binding]; other site 985002001591 active site 985002001592 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 985002001593 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 985002001594 motif II; other site 985002001595 proline/glycine betaine transporter; Provisional; Region: PRK10642 985002001596 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 985002001597 putative substrate translocation pore; other site 985002001598 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 985002001599 AMP-binding enzyme; Region: AMP-binding; cl15778 985002001600 acetyl-CoA acetyltransferase; Provisional; Region: PRK06690 985002001601 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 985002001602 dimer interface [polypeptide binding]; other site 985002001603 active site 985002001604 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 985002001605 dimer interface [polypeptide binding]; other site 985002001606 substrate binding site [chemical binding]; other site 985002001607 ATP binding site [chemical binding]; other site 985002001608 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 985002001609 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 985002001610 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 985002001611 ligand binding site [chemical binding]; other site 985002001612 active site 985002001613 UGI interface [polypeptide binding]; other site 985002001614 catalytic site [active] 985002001615 Protein of unknown function (DUF423); Region: DUF423; cl01008 985002001616 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 985002001617 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 985002001618 Uncharacterized conserved protein [Function unknown]; Region: COG2966 985002001619 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 985002001620 Chlorite dismutase; Region: Chlor_dismutase; cl01280 985002001621 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 985002001622 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 985002001623 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 985002001624 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 985002001625 mevalonate kinase; Region: mevalon_kin; TIGR00549 985002001626 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 985002001627 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985002001628 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 985002001629 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985002001630 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 985002001631 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 985002001632 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985002001633 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 985002001634 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 985002001635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002001636 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985002001637 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985002001638 Predicted transcriptional regulator [Transcription]; Region: COG1959 985002001639 Helix-turn-helix domains; Region: HTH; cl00088 985002001640 LXG domain of WXG superfamily; Region: LXG; pfam04740 985002001641 Protein of unknown function (DUF443); Region: DUF443; cl04467 985002001642 Protein of unknown function (DUF443); Region: DUF443; cl04467 985002001643 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 985002001644 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 985002001645 active site 985002001646 catalytic tetrad [active] 985002001647 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 985002001648 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985002001649 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002001650 Coenzyme A binding pocket [chemical binding]; other site 985002001651 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 985002001652 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985002001653 Zn2+ binding site [ion binding]; other site 985002001654 Mg2+ binding site [ion binding]; other site 985002001655 YwhD family; Region: YwhD; pfam08741 985002001656 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 985002001657 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 985002001658 NAD binding site [chemical binding]; other site 985002001659 substrate binding site [chemical binding]; other site 985002001660 catalytic Zn binding site [ion binding]; other site 985002001661 tetramer interface [polypeptide binding]; other site 985002001662 structural Zn binding site [ion binding]; other site 985002001663 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 985002001664 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 985002001665 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 985002001666 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 985002001667 active site 985002001668 HIGH motif; other site 985002001669 KMSK motif region; other site 985002001670 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 985002001671 tRNA binding surface [nucleotide binding]; other site 985002001672 anticodon binding site; other site 985002001673 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 985002001674 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 985002001675 minor groove reading motif; other site 985002001676 helix-hairpin-helix signature motif; other site 985002001677 substrate binding pocket [chemical binding]; other site 985002001678 active site 985002001679 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 985002001680 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 985002001681 putative binding site residues; other site 985002001682 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 985002001683 ABC-ATPase subunit interface; other site 985002001684 dimer interface [polypeptide binding]; other site 985002001685 putative PBP binding regions; other site 985002001686 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 985002001687 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 985002001688 motif II; other site 985002001689 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 985002001690 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; cl12031 985002001691 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 985002001692 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; cl12031 985002001693 Helix-turn-helix domains; Region: HTH; cl00088 985002001694 Protein of unknown function, DUF606; Region: DUF606; cl01273 985002001695 Protein of unknown function, DUF606; Region: DUF606; cl01273 985002001696 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 985002001697 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 985002001698 active site 985002001699 DNA binding site [nucleotide binding] 985002001700 Int/Topo IB signature motif; other site 985002001701 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12646 985002001702 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 985002001703 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 985002001704 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 985002001705 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 985002001706 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 985002001707 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 985002001708 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 985002001709 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 985002001710 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 985002001711 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 985002001712 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 985002001713 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 985002001714 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 985002001715 putative substrate translocation pore; other site 985002001716 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 985002001717 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 985002001718 motif II; other site 985002001719 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 985002001720 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 985002001721 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 985002001722 metal binding site [ion binding]; metal-binding site 985002001723 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 985002001724 ABC-ATPase subunit interface; other site 985002001725 dimer interface [polypeptide binding]; other site 985002001726 putative PBP binding regions; other site 985002001727 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 985002001728 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 985002001729 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 985002001730 Helix-turn-helix domains; Region: HTH; cl00088 985002001731 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 985002001732 FeoA domain; Region: FeoA; cl00838 985002001733 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 985002001734 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 985002001735 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 985002001736 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 985002001737 Walker A/P-loop; other site 985002001738 ATP binding site [chemical binding]; other site 985002001739 Q-loop/lid; other site 985002001740 ABC transporter signature motif; other site 985002001741 Walker B; other site 985002001742 D-loop; other site 985002001743 H-loop/switch region; other site 985002001744 ABC-2 type transporter; Region: ABC2_membrane; cl11417 985002001745 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 985002001746 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 985002001747 active site 985002001748 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 985002001749 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 985002001750 active site 985002001751 nucleotide binding site [chemical binding]; other site 985002001752 HIGH motif; other site 985002001753 KMSKS motif; other site 985002001754 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 985002001755 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 985002001756 Domain of unknown function (DUF1958); Region: DUF1958; pfam09211 985002001757 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985002001758 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 985002001759 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002001760 Walker A/P-loop; other site 985002001761 ATP binding site [chemical binding]; other site 985002001762 Q-loop/lid; other site 985002001763 ABC transporter signature motif; other site 985002001764 Walker B; other site 985002001765 D-loop; other site 985002001766 H-loop/switch region; other site 985002001767 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 985002001768 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 985002001769 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 985002001770 Uncharacterized conserved protein [Function unknown]; Region: COG1284 985002001771 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985002001772 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 985002001773 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985002001774 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985002001775 Walker A/P-loop; other site 985002001776 ATP binding site [chemical binding]; other site 985002001777 Q-loop/lid; other site 985002001778 ABC transporter signature motif; other site 985002001779 Walker B; other site 985002001780 D-loop; other site 985002001781 H-loop/switch region; other site 985002001782 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 985002001783 ABC-ATPase subunit interface; other site 985002001784 dimer interface [polypeptide binding]; other site 985002001785 putative PBP binding regions; other site 985002001786 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 985002001787 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 985002001788 ABC-ATPase subunit interface; other site 985002001789 dimer interface [polypeptide binding]; other site 985002001790 putative PBP binding regions; other site 985002001791 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 985002001792 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 985002001793 DAK2 domain; Region: Dak2; cl03685 985002001794 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 985002001795 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 985002001796 Uncharacterized membrane protein [Function unknown]; Region: COG3949 985002001797 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; cl12031 985002001798 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 985002001799 substrate binding pocket [chemical binding]; other site 985002001800 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; cl12031 985002001801 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 985002001802 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002001803 Coenzyme A binding pocket [chemical binding]; other site 985002001804 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002001805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002001806 NAD(P) binding site [chemical binding]; other site 985002001807 active site 985002001808 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985002001809 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 985002001810 active site 985002001811 phosphorylation site [posttranslational modification] 985002001812 intermolecular recognition site; other site 985002001813 dimerization interface [polypeptide binding]; other site 985002001814 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 985002001815 DNA binding site [nucleotide binding] 985002001816 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985002001817 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 985002001818 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 985002001819 ATP binding site [chemical binding]; other site 985002001820 Mg2+ binding site [ion binding]; other site 985002001821 G-X-G motif; other site 985002001822 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985002001823 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 985002001824 Walker A/P-loop; other site 985002001825 ATP binding site [chemical binding]; other site 985002001826 Q-loop/lid; other site 985002001827 ABC transporter signature motif; other site 985002001828 Walker B; other site 985002001829 D-loop; other site 985002001830 H-loop/switch region; other site 985002001831 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 985002001832 Phosphate transporter family; Region: PHO4; cl00396 985002001833 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985002001834 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 985002001835 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985002001836 NlpC/P60 family; Region: NLPC_P60; cl11438 985002001837 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 985002001838 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985002001839 Helix-turn-helix domains; Region: HTH; cl00088 985002001840 Transcriptional regulator; Region: Transcrip_reg; cl00361 985002001841 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 985002001842 Protein of unknown function (DUF402); Region: DUF402; cl00979 985002001843 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985002001844 Helix-turn-helix domains; Region: HTH; cl00088 985002001845 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 985002001846 dimerization interface [polypeptide binding]; other site 985002001847 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 985002001848 sugar efflux transporter; Region: 2A0120; TIGR00899 985002001849 putative substrate translocation pore; other site 985002001850 Protein of unknown function (DUF456); Region: DUF456; cl01069 985002001851 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985002001852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002001853 Coenzyme A binding pocket [chemical binding]; other site 985002001854 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 985002001855 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 985002001856 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002001857 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 985002001858 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 985002001859 Bacitracin resistance protein BacA; Region: BacA; cl00858 985002001860 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 985002001861 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 985002001862 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 985002001863 Walker A/P-loop; other site 985002001864 ATP binding site [chemical binding]; other site 985002001865 Q-loop/lid; other site 985002001866 ABC transporter signature motif; other site 985002001867 Walker B; other site 985002001868 D-loop; other site 985002001869 H-loop/switch region; other site 985002001870 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 985002001871 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 985002001872 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 985002001873 Walker A/P-loop; other site 985002001874 ATP binding site [chemical binding]; other site 985002001875 Q-loop/lid; other site 985002001876 ABC transporter signature motif; other site 985002001877 Walker B; other site 985002001878 D-loop; other site 985002001879 H-loop/switch region; other site 985002001880 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985002001881 Helix-turn-helix domains; Region: HTH; cl00088 985002001882 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 985002001883 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002001884 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 985002001885 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 985002001886 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985002001887 active site 985002001888 catalytic tetrad [active] 985002001889 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; cl15357 985002001890 transmembrane helices; other site 985002001891 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 985002001892 DNA photolyase; Region: DNA_photolyase; pfam00875 985002001893 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 985002001894 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 985002001895 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 985002001896 trimer interface [polypeptide binding]; other site 985002001897 putative Zn binding site [ion binding]; other site 985002001898 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 985002001899 putative substrate translocation pore; other site 985002001900 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 985002001901 putative deacylase active site [active] 985002001902 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 985002001903 Helix-turn-helix domains; Region: HTH; cl00088 985002001904 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 985002001905 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 985002001906 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 985002001907 putative substrate binding site [chemical binding]; other site 985002001908 putative ATP binding site [chemical binding]; other site 985002001909 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 985002001910 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 985002001911 active site 985002001912 phosphorylation site [posttranslational modification] 985002001913 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 985002001914 active site 985002001915 P-loop; other site 985002001916 phosphorylation site [posttranslational modification] 985002001917 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002001918 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 985002001919 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 985002001920 active site 985002001921 dimer interface [polypeptide binding]; other site 985002001922 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 985002001923 Domain of unknown function DUF21; Region: DUF21; pfam01595 985002001924 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 985002001925 Transporter associated domain; Region: CorC_HlyC; cl08393 985002001926 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 985002001927 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985002001928 active site 985002001929 catalytic tetrad [active] 985002001930 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 985002001931 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 985002001932 Ligand binding site; other site 985002001933 Putative Catalytic site; other site 985002001934 DXD motif; other site 985002001935 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 985002001936 dimer interface [polypeptide binding]; other site 985002001937 phosphorylation site [posttranslational modification] 985002001938 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 985002001939 ATP binding site [chemical binding]; other site 985002001940 Mg2+ binding site [ion binding]; other site 985002001941 G-X-G motif; other site 985002001942 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985002001943 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 985002001944 active site 985002001945 phosphorylation site [posttranslational modification] 985002001946 intermolecular recognition site; other site 985002001947 dimerization interface [polypeptide binding]; other site 985002001948 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 985002001949 DNA binding site [nucleotide binding] 985002001950 DoxX; Region: DoxX; cl00976 985002001951 Electron transfer DM13; Region: DM13; cl02735 985002001952 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 985002001953 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 985002001954 active site 985002001955 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 985002001956 Ligand Binding Site [chemical binding]; other site 985002001957 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 985002001958 Glutamine amidotransferase class-I; Region: GATase; pfam00117 985002001959 glutamine binding [chemical binding]; other site 985002001960 catalytic triad [active] 985002001961 aminodeoxychorismate synthase; Provisional; Region: PRK07508 985002001962 chorismate binding enzyme; Region: Chorismate_bind; cl10555 985002001963 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 985002001964 substrate-cofactor binding pocket; other site 985002001965 homodimer interface [polypeptide binding]; other site 985002001966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002001967 catalytic residue [active] 985002001968 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 985002001969 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 985002001970 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 985002001971 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 985002001972 Sulfatase; Region: Sulfatase; cl10460 985002001973 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 985002001974 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002001975 Walker A/P-loop; other site 985002001976 ATP binding site [chemical binding]; other site 985002001977 Q-loop/lid; other site 985002001978 ABC transporter signature motif; other site 985002001979 Walker B; other site 985002001980 D-loop; other site 985002001981 H-loop/switch region; other site 985002001982 ABC transporter; Region: ABC_tran_2; pfam12848 985002001983 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 985002001984 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 985002001985 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 985002001986 ATP binding site [chemical binding]; other site 985002001987 putative Mg++ binding site [ion binding]; other site 985002001988 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 985002001989 nucleotide binding region [chemical binding]; other site 985002001990 ATP-binding site [chemical binding]; other site 985002001991 RQC domain; Region: RQC; cl09632 985002001992 HRDC domain; Region: HRDC; cl02578 985002001993 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 985002001994 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 985002001995 Walker A/P-loop; other site 985002001996 ATP binding site [chemical binding]; other site 985002001997 Q-loop/lid; other site 985002001998 ABC transporter signature motif; other site 985002001999 Walker B; other site 985002002000 D-loop; other site 985002002001 H-loop/switch region; other site 985002002002 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 985002002003 dimer interface [polypeptide binding]; other site 985002002004 conserved gate region; other site 985002002005 ABC-ATPase subunit interface; other site 985002002006 NMT1-like family; Region: NMT1_2; cl15260 985002002007 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 985002002008 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 985002002009 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 985002002010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002002011 homodimer interface [polypeptide binding]; other site 985002002012 catalytic residue [active] 985002002013 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 985002002014 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 985002002015 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 985002002016 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 985002002017 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 985002002018 putative substrate translocation pore; other site 985002002019 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; cl11420 985002002020 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 985002002021 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 985002002022 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 985002002023 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 985002002024 Class I ribonucleotide reductase; Region: RNR_I; cd01679 985002002025 active site 985002002026 dimer interface [polypeptide binding]; other site 985002002027 catalytic residues [active] 985002002028 effector binding site; other site 985002002029 R2 peptide binding site; other site 985002002030 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 985002002031 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 985002002032 dimer interface [polypeptide binding]; other site 985002002033 putative radical transfer pathway; other site 985002002034 diiron center [ion binding]; other site 985002002035 tyrosyl radical; other site 985002002036 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 985002002037 ABC-ATPase subunit interface; other site 985002002038 dimer interface [polypeptide binding]; other site 985002002039 putative PBP binding regions; other site 985002002040 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 985002002041 ABC-ATPase subunit interface; other site 985002002042 dimer interface [polypeptide binding]; other site 985002002043 putative PBP binding regions; other site 985002002044 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 985002002045 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985002002046 Walker A/P-loop; other site 985002002047 ATP binding site [chemical binding]; other site 985002002048 Q-loop/lid; other site 985002002049 ABC transporter signature motif; other site 985002002050 Walker B; other site 985002002051 D-loop; other site 985002002052 H-loop/switch region; other site 985002002053 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 985002002054 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 985002002055 putative ligand binding residues [chemical binding]; other site 985002002056 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 985002002057 CHY zinc finger; Region: zf-CHY; pfam05495 985002002058 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13906 985002002059 FAD binding domain; Region: FAD_binding_4; pfam01565 985002002060 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 985002002061 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 985002002062 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 985002002063 Glycerate kinase family; Region: Gly_kinase; cl00841 985002002064 peptidase T; Region: peptidase-T; TIGR01882 985002002065 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 985002002066 metal binding site [ion binding]; metal-binding site 985002002067 dimer interface [polypeptide binding]; other site 985002002068 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 985002002069 Uncharacterized conserved protein [Function unknown]; Region: COG2966 985002002070 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 985002002071 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 985002002072 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 985002002073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 985002002074 metal binding site [ion binding]; metal-binding site 985002002075 active site 985002002076 I-site; other site 985002002077 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 985002002078 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 985002002079 Mg++ binding site [ion binding]; other site 985002002080 putative catalytic motif [active] 985002002081 substrate binding site [chemical binding]; other site 985002002082 Uncharacterized conserved protein [Function unknown]; Region: COG1739 985002002083 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 985002002084 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 985002002085 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 985002002086 DEAD-like helicases superfamily; Region: DEXDc; smart00487 985002002087 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 985002002088 ATP binding site [chemical binding]; other site 985002002089 putative Mg++ binding site [ion binding]; other site 985002002090 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 985002002091 nucleotide binding region [chemical binding]; other site 985002002092 ATP-binding site [chemical binding]; other site 985002002093 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 985002002094 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985002002095 active site 985002002096 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 A site; Region: RaiA; cd00552 985002002097 30S subunit binding site; other site 985002002098 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 985002002099 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 985002002100 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 985002002101 nucleotide binding region [chemical binding]; other site 985002002102 ATP-binding site [chemical binding]; other site 985002002103 SEC-C motif; Region: SEC-C; pfam02810 985002002104 peptide chain release factor 2; Validated; Region: prfB; PRK00578 985002002105 RF-1 domain; Region: RF-1; cl02875 985002002106 RF-1 domain; Region: RF-1; cl02875 985002002107 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985002002108 NlpC/P60 family; Region: NLPC_P60; cl11438 985002002109 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 985002002110 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; cl11559 985002002111 excinuclease ABC subunit B; Provisional; Region: PRK05298 985002002112 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 985002002113 ATP binding site [chemical binding]; other site 985002002114 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 985002002115 nucleotide binding region [chemical binding]; other site 985002002116 ATP-binding site [chemical binding]; other site 985002002117 Ultra-violet resistance protein B; Region: UvrB; pfam12344 985002002118 UvrB/uvrC motif; Region: UVR; pfam02151 985002002119 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 985002002120 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 985002002121 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 985002002122 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 985002002123 HPr kinase/phosphorylase; Provisional; Region: PRK05428 985002002124 DRTGG domain; Region: DRTGG; cl12147 985002002125 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 985002002126 Hpr binding site; other site 985002002127 active site 985002002128 homohexamer subunit interaction site [polypeptide binding]; other site 985002002129 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 985002002130 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 985002002131 trimer interface [polypeptide binding]; other site 985002002132 active site 985002002133 substrate binding site [chemical binding]; other site 985002002134 CoA binding site [chemical binding]; other site 985002002135 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 985002002136 binding surface 985002002137 TPR motif; other site 985002002138 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 985002002139 TPR motif; other site 985002002140 binding surface 985002002141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002002142 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 985002002143 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985002002144 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 985002002145 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 985002002146 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 985002002147 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 985002002148 phosphate binding site [ion binding]; other site 985002002149 dimer interface [polypeptide binding]; other site 985002002150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 985002002151 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 985002002152 Clp protease; Region: CLP_protease; pfam00574 985002002153 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 985002002154 oligomer interface [polypeptide binding]; other site 985002002155 active site residues [active] 985002002156 malate dehydrogenase; Provisional; Region: PRK13529 985002002157 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985002002158 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 985002002159 NAD(P) binding site [chemical binding]; other site 985002002160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002002161 TIGR01777 family protein; Region: yfcH 985002002162 NAD(P) binding site [chemical binding]; other site 985002002163 active site 985002002164 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 985002002165 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 985002002166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002002167 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 985002002168 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 985002002169 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 985002002170 Phosphoglycerate kinase; Region: PGK; pfam00162 985002002171 substrate binding site [chemical binding]; other site 985002002172 hinge regions; other site 985002002173 ADP binding site [chemical binding]; other site 985002002174 catalytic site [active] 985002002175 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 985002002176 substrate binding site [chemical binding]; other site 985002002177 dimer interface [polypeptide binding]; other site 985002002178 catalytic triad [active] 985002002179 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 985002002180 Sulfatase; Region: Sulfatase; cl10460 985002002181 enolase; Provisional; Region: eno; PRK00077 985002002182 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 985002002183 dimer interface [polypeptide binding]; other site 985002002184 metal binding site [ion binding]; metal-binding site 985002002185 substrate binding pocket [chemical binding]; other site 985002002186 Preprotein translocase SecG subunit; Region: SecG; cl09123 985002002187 Esterase/lipase [General function prediction only]; Region: COG1647 985002002188 Baculovirus DNA helicase; Region: Baculo_helicase; pfam04735 985002002189 ribonuclease R; Region: RNase_R; TIGR02063 985002002190 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 985002002191 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 985002002192 RNB domain; Region: RNB; pfam00773 985002002193 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 play an important...; Region: S1_RNase_R; cd04471 985002002194 RNA binding site [nucleotide binding]; other site 985002002195 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 985002002196 SmpB-tmRNA interface; other site 985002002197 Helix-turn-helix domains; Region: HTH; cl00088 985002002198 Helix-turn-helix domains; Region: HTH; cl00088 985002002199 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002002200 Predicted acetyltransferase [General function prediction only]; Region: COG3153 985002002201 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002002202 Coenzyme A binding pocket [chemical binding]; other site 985002002203 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002002204 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985002002205 Staphylococcus aureus coagulase; Region: Coagulase; pfam08764 985002002206 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 985002002207 Staphylococcal nuclease homologues; Region: SNc; smart00318 985002002208 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 985002002209 Catalytic site; other site 985002002210 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 protein; Region: CSP_CDS; cd04458 985002002211 DNA-binding site [nucleotide binding]; DNA binding site 985002002212 RNA-binding motif; other site 985002002213 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 985002002214 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 985002002215 catalytic core [active] 985002002216 LysE type translocator; Region: LysE; cl00565 985002002217 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 985002002218 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002002219 OsmC-like protein; Region: OsmC; cl00767 985002002220 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 985002002221 active site 985002002222 catalytic residue [active] 985002002223 dimer interface [polypeptide binding]; other site 985002002224 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 985002002225 putative FMN binding site [chemical binding]; other site 985002002226 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 985002002227 catalytic residues [active] 985002002228 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 985002002229 ArsC family; Region: ArsC; pfam03960 985002002230 putative ArsC-like catalytic residues; other site 985002002231 putative TRX-like catalytic residues [active] 985002002232 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 985002002233 lipoyl attachment site [posttranslational modification]; other site 985002002234 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 985002002235 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 985002002236 putative active site [active] 985002002237 putative metal binding site [ion binding]; other site 985002002238 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 985002002239 catalytic residues [active] 985002002240 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 985002002241 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 985002002242 Walker A/P-loop; other site 985002002243 ATP binding site [chemical binding]; other site 985002002244 Q-loop/lid; other site 985002002245 ABC transporter signature motif; other site 985002002246 Walker B; other site 985002002247 D-loop; other site 985002002248 H-loop/switch region; other site 985002002249 NIL domain; Region: NIL; cl09633 985002002250 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 985002002251 dimer interface [polypeptide binding]; other site 985002002252 conserved gate region; other site 985002002253 ABC-ATPase subunit interface; other site 985002002254 NMT1-like family; Region: NMT1_2; cl15260 985002002255 CsbD-like; Region: CsbD; cl15799 985002002256 Domain of unknown function (DUF368); Region: DUF368; cl00893 985002002257 FeS assembly ATPase SufC; Region: sufC; TIGR01978 985002002258 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 985002002259 Walker A/P-loop; other site 985002002260 ATP binding site [chemical binding]; other site 985002002261 Q-loop/lid; other site 985002002262 ABC transporter signature motif; other site 985002002263 Walker B; other site 985002002264 D-loop; other site 985002002265 H-loop/switch region; other site 985002002266 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 985002002267 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 985002002268 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 985002002269 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 985002002270 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985002002271 catalytic residue [active] 985002002272 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 985002002273 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 985002002274 trimerization site [polypeptide binding]; other site 985002002275 active site 985002002276 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 985002002277 FeS assembly protein SufB; Region: sufB; TIGR01980 985002002278 Domain of unknown function DUF21; Region: DUF21; pfam01595 985002002279 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 985002002280 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 985002002281 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 985002002282 FMN binding site [chemical binding]; other site 985002002283 substrate binding site [chemical binding]; other site 985002002284 putative catalytic residue [active] 985002002285 Protein of unknown function DUF72; Region: DUF72; cl00777 985002002286 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 985002002287 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 985002002288 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 985002002289 active site 985002002290 metal binding site [ion binding]; metal-binding site 985002002291 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985002002292 lipoyl synthase; Provisional; Region: PRK05481 985002002293 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 985002002294 FeS/SAM binding site; other site 985002002295 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 985002002296 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 985002002297 Protein of unknown function DUF86; Region: DUF86; cl01031 985002002298 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 985002002299 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 985002002300 active site 985002002301 motif I; other site 985002002302 motif II; other site 985002002303 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 985002002304 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 985002002305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002002306 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 985002002307 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 985002002308 AMP-binding enzyme; Region: AMP-binding; cl15778 985002002309 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 985002002310 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 985002002311 Phosphopantetheine attachment site; Region: PP-binding; cl09936 985002002312 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 985002002313 DltD N-terminal region; Region: DltD_N; pfam04915 985002002314 DltD central region; Region: DltD_M; pfam04918 985002002315 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 985002002316 NifU-like domain; Region: NifU; cl00484 985002002317 Protein of unknown function (DUF1462); Region: DUF1462; cl11552 985002002318 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 985002002319 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985002002320 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 985002002321 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 985002002322 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 985002002323 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985002002324 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 985002002325 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 985002002326 interface (dimer of trimers) [polypeptide binding]; other site 985002002327 Substrate-binding/catalytic site; other site 985002002328 Zn-binding sites [ion binding]; other site 985002002329 Predicted permease [General function prediction only]; Region: COG2056 985002002330 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 985002002331 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 985002002332 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 985002002333 CoenzymeA binding site [chemical binding]; other site 985002002334 subunit interaction site [polypeptide binding]; other site 985002002335 PHB binding site; other site 985002002336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002002337 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 985002002338 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 985002002339 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 985002002340 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 985002002341 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 985002002342 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 985002002343 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 985002002344 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 985002002345 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 985002002346 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 985002002347 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 985002002348 Kinase associated protein B; Region: KapB; pfam08810 985002002349 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 985002002350 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 985002002351 active site 985002002352 general stress protein 13; Validated; Region: PRK08059 985002002353 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 985002002354 RNA binding site [nucleotide binding]; other site 985002002355 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 985002002356 putative active site [active] 985002002357 putative FMN binding site [chemical binding]; other site 985002002358 putative substrate binding site [chemical binding]; other site 985002002359 putative catalytic residue [active] 985002002360 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 985002002361 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 985002002362 inhibitor-cofactor binding pocket; inhibition site 985002002363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002002364 catalytic residue [active] 985002002365 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 985002002366 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 985002002367 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 985002002368 NAD(P) binding site [chemical binding]; other site 985002002369 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 985002002370 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 985002002371 active site 985002002372 catalytic site [active] 985002002373 metal binding site [ion binding]; metal-binding site 985002002374 argininosuccinate lyase; Provisional; Region: PRK00855 985002002375 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 985002002376 active sites [active] 985002002377 tetramer interface [polypeptide binding]; other site 985002002378 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 985002002379 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 985002002380 ANP binding site [chemical binding]; other site 985002002381 Substrate Binding Site II [chemical binding]; other site 985002002382 Substrate Binding Site I [chemical binding]; other site 985002002383 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 985002002384 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 985002002385 active site 985002002386 dimer interface [polypeptide binding]; other site 985002002387 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 985002002388 dimer interface [polypeptide binding]; other site 985002002389 active site 985002002390 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 985002002391 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 985002002392 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 985002002393 Catalytic site [active] 985002002394 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 985002002395 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 985002002396 Catalytic site [active] 985002002397 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 985002002398 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 985002002399 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 985002002400 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002002401 Family description; Region: UvrD_C_2; cl15862 985002002402 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 985002002403 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 985002002404 Protein of unknown function (DUF1516); Region: DUF1516; cl11654 985002002405 coenzyme A disulfide reductase; Provisional; Region: PRK13512 985002002406 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985002002407 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985002002408 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 985002002409 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985002002410 active site 985002002411 motif I; other site 985002002412 motif II; other site 985002002413 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 985002002414 Domain of unknown function DUF59; Region: DUF59; cl00941 985002002415 OpgC protein; Region: OpgC_C; cl00792 985002002416 Acyltransferase family; Region: Acyl_transf_3; pfam01757 985002002417 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 985002002418 catalytic triad [active] 985002002419 catalytic triad [active] 985002002420 oxyanion hole [active] 985002002421 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 985002002422 Clp amino terminal domain; Region: Clp_N; pfam02861 985002002423 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 985002002424 Walker A motif; other site 985002002425 ATP binding site [chemical binding]; other site 985002002426 Walker B motif; other site 985002002427 arginine finger; other site 985002002428 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 985002002429 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 985002002430 Walker A motif; other site 985002002431 ATP binding site [chemical binding]; other site 985002002432 Walker B motif; other site 985002002433 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 985002002434 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985002002435 Helix-turn-helix domains; Region: HTH; cl00088 985002002436 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 985002002437 dimerization interface [polypeptide binding]; other site 985002002438 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 985002002439 substrate binding site [chemical binding]; other site 985002002440 MAP domain; Region: MAP; pfam03642 985002002441 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 985002002442 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 985002002443 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 985002002444 dimer interface [polypeptide binding]; other site 985002002445 active site 985002002446 CoA binding pocket [chemical binding]; other site 985002002447 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 985002002448 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 985002002449 dimer interface [polypeptide binding]; other site 985002002450 active site 985002002451 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 985002002452 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985002002453 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 985002002454 dimer interface [polypeptide binding]; other site 985002002455 conserved gate region; other site 985002002456 putative PBP binding loops; other site 985002002457 ABC-ATPase subunit interface; other site 985002002458 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 985002002459 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 985002002460 dimer interface [polypeptide binding]; other site 985002002461 conserved gate region; other site 985002002462 putative PBP binding loops; other site 985002002463 ABC-ATPase subunit interface; other site 985002002464 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985002002465 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 985002002466 Walker A/P-loop; other site 985002002467 ATP binding site [chemical binding]; other site 985002002468 Q-loop/lid; other site 985002002469 ABC transporter signature motif; other site 985002002470 Walker B; other site 985002002471 D-loop; other site 985002002472 H-loop/switch region; other site 985002002473 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985002002474 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985002002475 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 985002002476 Walker A/P-loop; other site 985002002477 ATP binding site [chemical binding]; other site 985002002478 Q-loop/lid; other site 985002002479 ABC transporter signature motif; other site 985002002480 Walker B; other site 985002002481 D-loop; other site 985002002482 H-loop/switch region; other site 985002002483 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985002002484 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 985002002485 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 985002002486 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 985002002487 peptide binding site [polypeptide binding]; other site 985002002488 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 985002002489 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 985002002490 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985002002491 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 985002002492 Walker A/P-loop; other site 985002002493 ATP binding site [chemical binding]; other site 985002002494 Q-loop/lid; other site 985002002495 ABC transporter signature motif; other site 985002002496 Walker B; other site 985002002497 D-loop; other site 985002002498 H-loop/switch region; other site 985002002499 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985002002500 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 985002002501 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 985002002502 Walker A/P-loop; other site 985002002503 ATP binding site [chemical binding]; other site 985002002504 Q-loop/lid; other site 985002002505 ABC transporter signature motif; other site 985002002506 Walker B; other site 985002002507 D-loop; other site 985002002508 H-loop/switch region; other site 985002002509 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985002002510 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 985002002511 dimer interface [polypeptide binding]; other site 985002002512 conserved gate region; other site 985002002513 putative PBP binding loops; other site 985002002514 ABC-ATPase subunit interface; other site 985002002515 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 985002002516 dimer interface [polypeptide binding]; other site 985002002517 conserved gate region; other site 985002002518 putative PBP binding loops; other site 985002002519 ABC-ATPase subunit interface; other site 985002002520 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 985002002521 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 985002002522 active site 985002002523 HIGH motif; other site 985002002524 dimer interface [polypeptide binding]; other site 985002002525 KMSKS motif; other site 985002002526 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 985002002527 ArsC family; Region: ArsC; pfam03960 985002002528 putative catalytic residues [active] 985002002529 thiol/disulfide switch; other site 985002002530 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 985002002531 Competence protein CoiA-like family; Region: CoiA; cl11541 985002002532 oligoendopeptidase F; Region: pepF; TIGR00181 985002002533 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 985002002534 active site 985002002535 Zn binding site [ion binding]; other site 985002002536 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 985002002537 Thioredoxin; Region: Thioredoxin_5; pfam13743 985002002538 catalytic residues [active] 985002002539 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 985002002540 apolar tunnel; other site 985002002541 heme binding site [chemical binding]; other site 985002002542 dimerization interface [polypeptide binding]; other site 985002002543 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 985002002544 putative active site [active] 985002002545 putative metal binding residues [ion binding]; other site 985002002546 signature motif; other site 985002002547 putative triphosphate binding site [ion binding]; other site 985002002548 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 985002002549 synthetase active site [active] 985002002550 NTP binding site [chemical binding]; other site 985002002551 metal binding site [ion binding]; metal-binding site 985002002552 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 985002002553 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 985002002554 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 985002002555 active site 985002002556 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 985002002557 MgtE intracellular N domain; Region: MgtE_N; cl15244 985002002558 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 985002002559 Divalent cation transporter; Region: MgtE; cl00786 985002002560 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 985002002561 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 985002002562 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 985002002563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002002564 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; cl15357 985002002565 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 985002002566 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 985002002567 NAD binding site [chemical binding]; other site 985002002568 homotetramer interface [polypeptide binding]; other site 985002002569 homodimer interface [polypeptide binding]; other site 985002002570 substrate binding site [chemical binding]; other site 985002002571 active site 985002002572 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 985002002573 Domain of unknown function DUF20; Region: UPF0118; pfam01594 985002002574 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 985002002575 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 985002002576 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; cl12031 985002002577 Putative esterase; Region: Esterase; pfam00756 985002002578 hypothetical protein; Provisional; Region: PRK13679 985002002579 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 985002002580 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985002002581 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 985002002582 putative substrate translocation pore; other site 985002002583 diacylglycerol glucosyltransferase; Provisional; Region: PRK13608 985002002584 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 985002002585 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 985002002586 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 985002002587 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 985002002588 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985002002589 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985002002590 YueH-like protein; Region: YueH; pfam14166 985002002591 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 985002002592 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 985002002593 G1 box; other site 985002002594 putative GEF interaction site [polypeptide binding]; other site 985002002595 GTP/Mg2+ binding site [chemical binding]; other site 985002002596 Switch I region; other site 985002002597 G2 box; other site 985002002598 G3 box; other site 985002002599 Switch II region; other site 985002002600 G4 box; other site 985002002601 G5 box; other site 985002002602 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 985002002603 Integral membrane protein TerC family; Region: TerC; cl10468 985002002604 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 985002002605 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 985002002606 protein binding site [polypeptide binding]; other site 985002002607 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 985002002608 Cation transport protein; Region: TrkH; cl10514 985002002609 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 985002002610 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 985002002611 active site 985002002612 metal binding site [ion binding]; metal-binding site 985002002613 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985002002614 ComK protein; Region: ComK; cl11560 985002002615 IDEAL domain; Region: IDEAL; cl07452 985002002616 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 985002002617 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 985002002618 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 985002002619 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 985002002620 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 985002002621 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 985002002622 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 985002002623 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 985002002624 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 985002002625 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 985002002626 Walker A/P-loop; other site 985002002627 ATP binding site [chemical binding]; other site 985002002628 Q-loop/lid; other site 985002002629 ABC transporter signature motif; other site 985002002630 Walker B; other site 985002002631 D-loop; other site 985002002632 H-loop/switch region; other site 985002002633 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 985002002634 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 985002002635 DoxX; Region: DoxX; cl00976 985002002636 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 985002002637 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 985002002638 siderophore binding site; other site 985002002639 TM2 domain; Region: TM2; cl00984 985002002640 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002002641 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002002642 Coenzyme A binding pocket [chemical binding]; other site 985002002643 UbiA prenyltransferase family; Region: UbiA; cl00337 985002002644 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 985002002645 chorismate binding enzyme; Region: Chorismate_bind; cl10555 985002002646 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 985002002647 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 985002002648 dimer interface [polypeptide binding]; other site 985002002649 tetramer interface [polypeptide binding]; other site 985002002650 PYR/PP interface [polypeptide binding]; other site 985002002651 TPP binding site [chemical binding]; other site 985002002652 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 985002002653 TPP-binding site; other site 985002002654 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 985002002655 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 985002002656 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 985002002657 substrate binding site [chemical binding]; other site 985002002658 oxyanion hole (OAH) forming residues; other site 985002002659 trimer interface [polypeptide binding]; other site 985002002660 Staphostatin B; Region: Staphostatin_B; pfam09023 985002002661 Staphopain peptidase C47; Region: Peptidase_C47; pfam05543 985002002662 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 985002002663 aminotransferase A; Validated; Region: PRK07683 985002002664 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 985002002665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002002666 homodimer interface [polypeptide binding]; other site 985002002667 catalytic residue [active] 985002002668 OpgC protein; Region: OpgC_C; cl00792 985002002669 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985002002670 Helix-turn-helix domains; Region: HTH; cl00088 985002002671 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 985002002672 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 985002002673 amidase catalytic site [active] 985002002674 Zn binding residues [ion binding]; other site 985002002675 substrate binding site [chemical binding]; other site 985002002676 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 985002002677 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 985002002678 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002002679 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002002680 Coenzyme A binding pocket [chemical binding]; other site 985002002681 Protein of unknown function (DUF2538); Region: DUF2538; pfam10804 985002002682 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 985002002683 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 985002002684 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 985002002685 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 985002002686 Subunit I/III interface [polypeptide binding]; other site 985002002687 Subunit III/IV interface [polypeptide binding]; other site 985002002688 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 985002002689 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 985002002690 D-pathway; other site 985002002691 Putative ubiquinol binding site [chemical binding]; other site 985002002692 Low-spin heme (heme b) binding site [chemical binding]; other site 985002002693 Putative water exit pathway; other site 985002002694 Binuclear center (heme o3/CuB) [ion binding]; other site 985002002695 K-pathway; other site 985002002696 Putative proton exit pathway; other site 985002002697 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 985002002698 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 985002002699 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 985002002700 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 985002002701 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14175 985002002702 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 985002002703 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 985002002704 homodimer interface [polypeptide binding]; other site 985002002705 NADP binding site [chemical binding]; other site 985002002706 substrate binding site [chemical binding]; other site 985002002707 AIR carboxylase; Region: AIRC; cl00310 985002002708 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 985002002709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002002710 ATP-grasp domain; Region: ATP-grasp_4; cl03087 985002002711 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 985002002712 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 985002002713 ATP binding site [chemical binding]; other site 985002002714 active site 985002002715 substrate binding site [chemical binding]; other site 985002002716 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 985002002717 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 985002002718 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 985002002719 putative active site [active] 985002002720 catalytic triad [active] 985002002721 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 985002002722 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 985002002723 dimerization interface [polypeptide binding]; other site 985002002724 ATP binding site [chemical binding]; other site 985002002725 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 985002002726 dimerization interface [polypeptide binding]; other site 985002002727 ATP binding site [chemical binding]; other site 985002002728 amidophosphoribosyltransferase; Provisional; Region: PRK07272 985002002729 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 985002002730 active site 985002002731 tetramer interface [polypeptide binding]; other site 985002002732 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985002002733 active site 985002002734 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 985002002735 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 985002002736 dimerization interface [polypeptide binding]; other site 985002002737 putative ATP binding site [chemical binding]; other site 985002002738 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 985002002739 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 985002002740 active site 985002002741 substrate binding site [chemical binding]; other site 985002002742 cosubstrate binding site; other site 985002002743 catalytic site [active] 985002002744 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 985002002745 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 985002002746 purine monophosphate binding site [chemical binding]; other site 985002002747 dimer interface [polypeptide binding]; other site 985002002748 putative catalytic residues [active] 985002002749 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 985002002750 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 985002002751 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 985002002752 phosphoribosylamine--glycine ligase; Provisional; Region: PRK13790 985002002753 ATP-grasp domain; Region: ATP-grasp_4; cl03087 985002002754 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 985002002755 Cobalt transport protein; Region: CbiQ; cl00463 985002002756 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 985002002757 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 985002002758 Walker A/P-loop; other site 985002002759 ATP binding site [chemical binding]; other site 985002002760 Q-loop/lid; other site 985002002761 ABC transporter signature motif; other site 985002002762 Walker B; other site 985002002763 D-loop; other site 985002002764 H-loop/switch region; other site 985002002765 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 985002002766 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 985002002767 Walker A/P-loop; other site 985002002768 ATP binding site [chemical binding]; other site 985002002769 Q-loop/lid; other site 985002002770 ABC transporter signature motif; other site 985002002771 Walker B; other site 985002002772 D-loop; other site 985002002773 H-loop/switch region; other site 985002002774 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 985002002775 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 985002002776 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 985002002777 putative RNA binding site [nucleotide binding]; other site 985002002778 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; cl16911 985002002779 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 985002002780 dimerization domain swap beta strand [polypeptide binding]; other site 985002002781 regulatory protein interface [polypeptide binding]; other site 985002002782 active site 985002002783 regulatory phosphorylation site [posttranslational modification]; other site 985002002784 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 985002002785 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 985002002786 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 985002002787 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; cl09155 985002002788 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 985002002789 catalytic residues [active] 985002002790 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 985002002791 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 985002002792 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 985002002793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002002794 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; cl15357 985002002795 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 985002002796 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002002797 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 985002002798 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 985002002799 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 985002002800 active site 985002002801 catalytic residues [active] 985002002802 metal binding site [ion binding]; metal-binding site 985002002803 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 985002002804 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 985002002805 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 985002002806 TPP-binding site [chemical binding]; other site 985002002807 tetramer interface [polypeptide binding]; other site 985002002808 heterodimer interface [polypeptide binding]; other site 985002002809 phosphorylation loop region [posttranslational modification] 985002002810 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 985002002811 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 985002002812 alpha subunit interface [polypeptide binding]; other site 985002002813 TPP binding site [chemical binding]; other site 985002002814 heterodimer interface [polypeptide binding]; other site 985002002815 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985002002816 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 985002002817 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 985002002818 E3 interaction surface; other site 985002002819 lipoyl attachment site [posttranslational modification]; other site 985002002820 e3 binding domain; Region: E3_binding; pfam02817 985002002821 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 985002002822 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 985002002823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002002824 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985002002825 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985002002826 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 985002002827 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985002002828 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 985002002829 non-specific DNA binding site [nucleotide binding]; other site 985002002830 salt bridge; other site 985002002831 sequence-specific DNA binding site [nucleotide binding]; other site 985002002832 Cupin domain; Region: Cupin_2; cl09118 985002002833 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 985002002834 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002002835 Walker A/P-loop; other site 985002002836 ATP binding site [chemical binding]; other site 985002002837 Q-loop/lid; other site 985002002838 ABC transporter signature motif; other site 985002002839 Walker B; other site 985002002840 D-loop; other site 985002002841 H-loop/switch region; other site 985002002842 TOBE domain; Region: TOBE_2; cl01440 985002002843 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 985002002844 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 985002002845 putative PBP binding loops; other site 985002002846 dimer interface [polypeptide binding]; other site 985002002847 ABC-ATPase subunit interface; other site 985002002848 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 985002002849 dimer interface [polypeptide binding]; other site 985002002850 conserved gate region; other site 985002002851 putative PBP binding loops; other site 985002002852 ABC-ATPase subunit interface; other site 985002002853 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 985002002854 Toxin Fst, type I toxin-antitoxin system; Region: Fst_toxin; pfam13955 985002002855 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 985002002856 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 985002002857 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 985002002858 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 985002002859 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 985002002860 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 985002002861 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 985002002862 active site 985002002863 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 985002002864 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 985002002865 G1 box; other site 985002002866 putative GEF interaction site [polypeptide binding]; other site 985002002867 GTP/Mg2+ binding site [chemical binding]; other site 985002002868 Switch I region; other site 985002002869 G2 box; other site 985002002870 G3 box; other site 985002002871 Switch II region; other site 985002002872 G4 box; other site 985002002873 G5 box; other site 985002002874 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 985002002875 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 985002002876 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; cl11558 985002002877 Protein of unknown function (DUF1507); Region: DUF1507; cl11487 985002002878 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 985002002879 pyruvate carboxylase; Reviewed; Region: PRK12999 985002002880 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985002002881 ATP-grasp domain; Region: ATP-grasp_4; cl03087 985002002882 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 985002002883 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 985002002884 active site 985002002885 catalytic residues [active] 985002002886 metal binding site [ion binding]; metal-binding site 985002002887 homodimer binding site [polypeptide binding]; other site 985002002888 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 985002002889 carboxyltransferase (CT) interaction site; other site 985002002890 biotinylation site [posttranslational modification]; other site 985002002891 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 985002002892 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 985002002893 UbiA prenyltransferase family; Region: UbiA; cl00337 985002002894 Protein of unknown function (DUF420); Region: DUF420; cl00989 985002002895 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 985002002896 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 985002002897 Protein of unknown function (DUF964); Region: DUF964; cl01483 985002002898 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 985002002899 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 985002002900 putative active site [active] 985002002901 catalytic site [active] 985002002902 putative metal binding site [ion binding]; other site 985002002903 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 985002002904 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 985002002905 S-adenosylmethionine binding site [chemical binding]; other site 985002002906 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 985002002907 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 985002002908 active site 985002002909 (T/H)XGH motif; other site 985002002910 hypothetical protein; Provisional; Region: PRK13670 985002002911 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 985002002912 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 985002002913 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 985002002914 heme uptake protein IsdB; Region: IsdB; TIGR03657 985002002915 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002002916 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 985002002917 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985002002918 heme-binding site [chemical binding]; other site 985002002919 Gram positive anchor; Region: Gram_pos_anchor; cl15427 985002002920 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 985002002921 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985002002922 heme-binding site [chemical binding]; other site 985002002923 heme uptake protein IsdC; Region: IsdC; TIGR03656 985002002924 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985002002925 heme-binding site [chemical binding]; other site 985002002926 sortase B signal domain, NPQTN class; Region: srtB_sig_NPQTN; TIGR03068 985002002927 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 985002002928 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 985002002929 intersubunit interface [polypeptide binding]; other site 985002002930 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 985002002931 ABC-ATPase subunit interface; other site 985002002932 dimer interface [polypeptide binding]; other site 985002002933 putative PBP binding regions; other site 985002002934 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 985002002935 active site 985002002936 catalytic site [active] 985002002937 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 985002002938 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 985002002939 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 985002002940 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 985002002941 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 985002002942 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 985002002943 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 985002002944 dimer interface [polypeptide binding]; other site 985002002945 motif 1; other site 985002002946 active site 985002002947 motif 2; other site 985002002948 motif 3; other site 985002002949 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 985002002950 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 985002002951 putative tRNA-binding site [nucleotide binding]; other site 985002002952 B3/4 domain; Region: B3_4; cl11458 985002002953 tRNA synthetase B5 domain; Region: B5; cl08394 985002002954 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 985002002955 dimer interface [polypeptide binding]; other site 985002002956 motif 1; other site 985002002957 motif 3; other site 985002002958 motif 2; other site 985002002959 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 985002002960 ribonuclease HIII; Provisional; Region: PRK00996 985002002961 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 985002002962 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 985002002963 RNA/DNA hybrid binding site [nucleotide binding]; other site 985002002964 active site 985002002965 Cell division protein ZapA; Region: ZapA; cl01146 985002002966 Colicin V production protein; Region: Colicin_V; cl00567 985002002967 hypothetical protein; Provisional; Region: PRK08609 985002002968 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 985002002969 active site 985002002970 primer binding site [nucleotide binding]; other site 985002002971 NTP binding site [chemical binding]; other site 985002002972 metal binding triad [ion binding]; metal-binding site 985002002973 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 985002002974 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 985002002975 Walker A/P-loop; other site 985002002976 ATP binding site [chemical binding]; other site 985002002977 Q-loop/lid; other site 985002002978 ABC transporter signature motif; other site 985002002979 Walker B; other site 985002002980 D-loop; other site 985002002981 H-loop/switch region; other site 985002002982 Smr domain; Region: Smr; cl02619 985002002983 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 985002002984 catalytic residues [active] 985002002985 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 985002002986 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 985002002987 GIY-YIG motif/motif A; other site 985002002988 active site 985002002989 catalytic site [active] 985002002990 putative DNA binding site [nucleotide binding]; other site 985002002991 metal binding site [ion binding]; metal-binding site 985002002992 UvrB/uvrC motif; Region: UVR; pfam02151 985002002993 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 985002002994 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 985002002995 putative Iron-sulfur protein interface [polypeptide binding]; other site 985002002996 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 985002002997 proximal heme binding site [chemical binding]; other site 985002002998 distal heme binding site [chemical binding]; other site 985002002999 putative dimer interface [polypeptide binding]; other site 985002003000 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 985002003001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002003002 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 985002003003 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 985002003004 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 985002003005 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 985002003006 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 985002003007 active site 985002003008 dimerization interface [polypeptide binding]; other site 985002003009 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 985002003010 active site 985002003011 metal binding site [ion binding]; metal-binding site 985002003012 homotetramer interface [polypeptide binding]; other site 985002003013 Extracellular fibrinogen binding protein C terminal; Region: efb-c; pfam12199 985002003014 formyl peptide receptor-like 1 inhibitory protein; Reviewed; Region: PRK13033 985002003015 Extracellular fibrinogen binding protein C terminal; Region: efb-c; pfam12199 985002003016 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 985002003017 superantigen-like protein; Reviewed; Region: PRK13350 985002003018 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002003019 superantigen-like protein; Reviewed; Region: PRK13349 985002003020 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002003021 superantigen-like protein; Reviewed; Region: PRK13043 985002003022 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002003023 ornithine carbamoyltransferase; Provisional; Region: PRK04284 985002003024 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 985002003025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002003026 carbamate kinase; Reviewed; Region: PRK12686 985002003027 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 985002003028 putative substrate binding site [chemical binding]; other site 985002003029 nucleotide binding site [chemical binding]; other site 985002003030 nucleotide binding site [chemical binding]; other site 985002003031 homodimer interface [polypeptide binding]; other site 985002003032 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 985002003033 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 985002003034 gating phenylalanine in ion channel; other site 985002003035 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 985002003036 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 985002003037 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 985002003038 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 985002003039 motif II; other site 985002003040 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002003041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 985002003042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 985002003043 MraZ protein; Region: MraZ; pfam02381 985002003044 MraZ protein; Region: MraZ; pfam02381 985002003045 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 985002003046 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; cl16911 985002003047 Septum formation initiator; Region: DivIC; cl11433 985002003048 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 985002003049 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 985002003050 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 985002003051 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 985002003052 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 985002003053 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 985002003054 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 985002003055 Mg++ binding site [ion binding]; other site 985002003056 putative catalytic motif [active] 985002003057 putative substrate binding site [chemical binding]; other site 985002003058 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 985002003059 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985002003060 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985002003061 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 985002003062 Cell division protein FtsQ; Region: FtsQ; pfam03799 985002003063 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 985002003064 Cell division protein FtsA; Region: FtsA; cl11496 985002003065 Cell division protein FtsA; Region: FtsA; cl11496 985002003066 cell division protein FtsZ; Validated; Region: PRK09330 985002003067 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 985002003068 nucleotide binding site [chemical binding]; other site 985002003069 SulA interaction site; other site 985002003070 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 985002003071 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 985002003072 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 985002003073 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985002003074 catalytic residue [active] 985002003075 Protein of unknown function (DUF552); Region: DUF552; cl00775 985002003076 YGGT family; Region: YGGT; cl00508 985002003077 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 985002003078 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 985002003079 RNA binding surface [nucleotide binding]; other site 985002003080 DivIVA protein; Region: DivIVA; pfam05103 985002003081 DivIVA domain; Region: DivI1A_domain; TIGR03544 985002003082 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 985002003083 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 985002003084 HIGH motif; other site 985002003085 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 985002003086 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 985002003087 active site 985002003088 KMSKS motif; other site 985002003089 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 985002003090 tRNA binding surface [nucleotide binding]; other site 985002003091 anticodon binding site; other site 985002003092 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 985002003093 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 985002003094 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 985002003095 active site 985002003096 metal binding site [ion binding]; metal-binding site 985002003097 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 985002003098 lipoprotein signal peptidase; Provisional; Region: PRK14787 985002003099 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 985002003100 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 985002003101 RNA binding surface [nucleotide binding]; other site 985002003102 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 985002003103 active site 985002003104 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985002003105 active site 985002003106 uracil transporter; Provisional; Region: PRK10720 985002003107 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 985002003108 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 985002003109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002003110 dihydroorotase; Validated; Region: pyrC; PRK09357 985002003111 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 985002003112 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 985002003113 active site 985002003114 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 985002003115 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 985002003116 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 985002003117 catalytic site [active] 985002003118 subunit interface [polypeptide binding]; other site 985002003119 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 985002003120 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985002003121 ATP-grasp domain; Region: ATP-grasp_4; cl03087 985002003122 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 985002003123 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985002003124 ATP-grasp domain; Region: ATP-grasp_4; cl03087 985002003125 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 985002003126 IMP binding site; other site 985002003127 dimer interface [polypeptide binding]; other site 985002003128 interdomain contacts; other site 985002003129 partial ornithine binding site; other site 985002003130 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 contains two...; Region: OMP_decarboxylase_like; cd04725 985002003131 active site 985002003132 dimer interface [polypeptide binding]; other site 985002003133 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985002003134 active site 985002003135 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 985002003136 dimer interface [polypeptide binding]; other site 985002003137 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 985002003138 Domain of unknown function (DUF814); Region: DUF814; pfam05670 985002003139 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 985002003140 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 985002003141 catalytic site [active] 985002003142 G-X2-G-X-G-K; other site 985002003143 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 985002003144 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 985002003145 Flavoprotein; Region: Flavoprotein; cl08021 985002003146 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 985002003147 primosome assembly protein PriA; Validated; Region: PRK05580 985002003148 primosome assembly protein PriA; Validated; Region: PRK05580 985002003149 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 985002003150 ATP binding site [chemical binding]; other site 985002003151 putative Mg++ binding site [ion binding]; other site 985002003152 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002003153 TM2 domain; Region: TM2; cl00984 985002003154 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 985002003155 active site 985002003156 catalytic residues [active] 985002003157 metal binding site [ion binding]; metal-binding site 985002003158 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 985002003159 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 985002003160 putative active site [active] 985002003161 substrate binding site [chemical binding]; other site 985002003162 putative cosubstrate binding site; other site 985002003163 catalytic site [active] 985002003164 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 985002003165 substrate binding site [chemical binding]; other site 985002003166 16S rRNA methyltransferase B; Provisional; Region: PRK14902 985002003167 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 985002003168 putative RNA binding site [nucleotide binding]; other site 985002003169 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; cl16911 985002003170 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 985002003171 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 985002003172 FeS/SAM binding site; other site 985002003173 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 985002003174 Protein phosphatase 2C; Region: PP2C; pfam00481 985002003175 active site 985002003176 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 985002003177 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 985002003178 active site 985002003179 ATP binding site [chemical binding]; other site 985002003180 substrate binding site [chemical binding]; other site 985002003181 activation loop (A-loop); other site 985002003182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 985002003183 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 985002003184 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 985002003185 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 985002003186 GTPase RsgA; Reviewed; Region: PRK00098 985002003187 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 985002003188 RNA binding site [nucleotide binding]; other site 985002003189 homodimer interface [polypeptide binding]; other site 985002003190 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 985002003191 GTPase/Zn-binding domain interface [polypeptide binding]; other site 985002003192 GTP/Mg2+ binding site [chemical binding]; other site 985002003193 G4 box; other site 985002003194 G5 box; other site 985002003195 G1 box; other site 985002003196 Switch I region; other site 985002003197 G2 box; other site 985002003198 G3 box; other site 985002003199 Switch II region; other site 985002003200 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 985002003201 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 985002003202 substrate binding site [chemical binding]; other site 985002003203 hexamer interface [polypeptide binding]; other site 985002003204 metal binding site [ion binding]; metal-binding site 985002003205 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 985002003206 Thiamine pyrophosphokinase; Region: TPK; cd07995 985002003207 active site 985002003208 dimerization interface [polypeptide binding]; other site 985002003209 thiamine binding site [chemical binding]; other site 985002003210 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 985002003211 Asp23 family; Region: Asp23; cl00574 985002003212 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 985002003213 DAK2 domain; Region: Dak2; cl03685 985002003214 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 985002003215 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 985002003216 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 985002003217 ssDNA binding site; other site 985002003218 generic binding surface II; other site 985002003219 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 985002003220 ATP binding site [chemical binding]; other site 985002003221 putative Mg++ binding site [ion binding]; other site 985002003222 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 985002003223 nucleotide binding region [chemical binding]; other site 985002003224 ATP-binding site [chemical binding]; other site 985002003225 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 985002003226 Helix-turn-helix domains; Region: HTH; cl00088 985002003227 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 985002003228 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 985002003229 Acyl transferase domain; Region: Acyl_transf_1; cl08282 985002003230 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 985002003231 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 985002003232 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 985002003233 NAD(P) binding site [chemical binding]; other site 985002003234 homotetramer interface [polypeptide binding]; other site 985002003235 homodimer interface [polypeptide binding]; other site 985002003236 active site 985002003237 Phosphopantetheine attachment site; Region: PP-binding; cl09936 985002003238 ribonuclease III; Reviewed; Region: rnc; PRK00102 985002003239 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 985002003240 dimerization interface [polypeptide binding]; other site 985002003241 active site 985002003242 metal binding site [ion binding]; metal-binding site 985002003243 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 985002003244 dsRNA binding site [nucleotide binding]; other site 985002003245 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 985002003246 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 985002003247 Walker A/P-loop; other site 985002003248 ATP binding site [chemical binding]; other site 985002003249 Q-loop/lid; other site 985002003250 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 985002003251 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 985002003252 ABC transporter signature motif; other site 985002003253 Walker B; other site 985002003254 D-loop; other site 985002003255 H-loop/switch region; other site 985002003256 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 985002003257 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 985002003258 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 985002003259 P loop; other site 985002003260 GTP binding site [chemical binding]; other site 985002003261 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 985002003262 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 985002003263 signal recognition particle protein; Provisional; Region: PRK10867 985002003264 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 985002003265 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 985002003266 P loop; other site 985002003267 GTP binding site [chemical binding]; other site 985002003268 Signal peptide binding domain; Region: SRP_SPB; pfam02978 985002003269 DDE superfamily endonuclease; Region: DDE_4; cl15789 985002003270 DDE superfamily endonuclease; Region: DDE_4; cl15789 985002003271 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985002003272 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 985002003273 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 985002003274 RimM N-terminal domain; Region: RimM; pfam01782 985002003275 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 985002003276 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 985002003277 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 985002003278 Predicted membrane protein [Function unknown]; Region: COG4485 985002003279 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 985002003280 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 985002003281 GTP/Mg2+ binding site [chemical binding]; other site 985002003282 G4 box; other site 985002003283 G5 box; other site 985002003284 G1 box; other site 985002003285 Switch I region; other site 985002003286 G2 box; other site 985002003287 G3 box; other site 985002003288 Switch II region; other site 985002003289 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 985002003290 RNA/DNA hybrid binding site [nucleotide binding]; other site 985002003291 active site 985002003292 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 985002003293 ATP-grasp domain; Region: ATP-grasp_4; cl03087 985002003294 CoA-ligase; Region: Ligase_CoA; cl02894 985002003295 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 985002003296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002003297 CoA-ligase; Region: Ligase_CoA; cl02894 985002003298 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002003299 autolysin; Reviewed; Region: PRK06347 985002003300 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985002003301 NlpC/P60 family; Region: NLPC_P60; cl11438 985002003302 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002003303 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 985002003304 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 985002003305 DNA topoisomerase I; Validated; Region: PRK05582 985002003306 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 985002003307 active site 985002003308 interdomain interaction site; other site 985002003309 putative metal-binding site [ion binding]; other site 985002003310 nucleotide binding site [chemical binding]; other site 985002003311 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 985002003312 domain I; other site 985002003313 DNA binding groove [nucleotide binding] 985002003314 phosphate binding site [ion binding]; other site 985002003315 domain II; other site 985002003316 domain III; other site 985002003317 nucleotide binding site [chemical binding]; other site 985002003318 catalytic site [active] 985002003319 domain IV; other site 985002003320 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 985002003321 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 985002003322 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 985002003323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002003324 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 985002003325 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 985002003326 active site 985002003327 DNA binding site [nucleotide binding] 985002003328 Int/Topo IB signature motif; other site 985002003329 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 985002003330 active site 985002003331 HslU subunit interaction site [polypeptide binding]; other site 985002003332 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 985002003333 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 985002003334 Walker A motif; other site 985002003335 ATP binding site [chemical binding]; other site 985002003336 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002003337 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 985002003338 transcriptional repressor CodY; Validated; Region: PRK04158 985002003339 CodY GAF-like domain; Region: CodY; pfam06018 985002003340 Helix-turn-helix domains; Region: HTH; cl00088 985002003341 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 985002003342 rRNA interaction site [nucleotide binding]; other site 985002003343 S8 interaction site; other site 985002003344 putative laminin-1 binding site; other site 985002003345 elongation factor Ts; Provisional; Region: tsf; PRK09377 985002003346 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 985002003347 Elongation factor TS; Region: EF_TS; pfam00889 985002003348 Elongation factor TS; Region: EF_TS; pfam00889 985002003349 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 985002003350 putative nucleotide binding site [chemical binding]; other site 985002003351 uridine monophosphate binding site [chemical binding]; other site 985002003352 homohexameric interface [polypeptide binding]; other site 985002003353 ribosome recycling factor; Reviewed; Region: frr; PRK00083 985002003354 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 round of...; Region: RRF; cd00520 985002003355 hinge region; other site 985002003356 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 985002003357 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 985002003358 catalytic residue [active] 985002003359 putative FPP diphosphate binding site; other site 985002003360 putative FPP binding hydrophobic cleft; other site 985002003361 dimer interface [polypeptide binding]; other site 985002003362 putative IPP diphosphate binding site; other site 985002003363 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 985002003364 RIP metalloprotease RseP; Region: TIGR00054 985002003365 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 985002003366 active site 985002003367 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 985002003368 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 985002003369 protein binding site [polypeptide binding]; other site 985002003370 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 985002003371 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 985002003372 putative substrate binding region [chemical binding]; other site 985002003373 putative substrate binding region [chemical binding]; other site 985002003374 prolyl-tRNA synthetase; Provisional; Region: PRK09194 985002003375 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 formation of...; Region: ProRS_core_prok; cd00779 985002003376 dimer interface [polypeptide binding]; other site 985002003377 motif 1; other site 985002003378 active site 985002003379 motif 2; other site 985002003380 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 985002003381 putative deacylase active site [active] 985002003382 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 attaches...; Region: class_II_aaRS-like_core; cl00268 985002003383 active site 985002003384 motif 3; other site 985002003385 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 985002003386 anticodon binding site; other site 985002003387 DNA polymerase III PolC; Validated; Region: polC; PRK00448 985002003388 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 985002003389 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 985002003390 generic binding surface II; other site 985002003391 generic binding surface I; other site 985002003392 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 985002003393 active site 985002003394 catalytic site [active] 985002003395 substrate binding site [chemical binding]; other site 985002003396 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 985002003397 ribosome maturation protein RimP; Reviewed; Region: PRK00092 985002003398 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 985002003399 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 985002003400 Sm1 motif; other site 985002003401 predicted subunit interaction site [polypeptide binding]; other site 985002003402 RNA binding pocket [nucleotide binding]; other site 985002003403 Sm2 motif; other site 985002003404 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 985002003405 NusA N-terminal domain; Region: NusA_N; pfam08529 985002003406 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 985002003407 RNA binding site [nucleotide binding]; other site 985002003408 homodimer interface [polypeptide binding]; other site 985002003409 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 985002003410 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 985002003411 G-X-X-G motif; other site 985002003412 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 985002003413 putative RNA binding cleft [nucleotide binding]; other site 985002003414 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 985002003415 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 985002003416 translation initiation factor IF-2; Region: IF-2; TIGR00487 985002003417 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 985002003418 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 985002003419 G1 box; other site 985002003420 putative GEF interaction site [polypeptide binding]; other site 985002003421 GTP/Mg2+ binding site [chemical binding]; other site 985002003422 Switch I region; other site 985002003423 G2 box; other site 985002003424 G3 box; other site 985002003425 Switch II region; other site 985002003426 G4 box; other site 985002003427 G5 box; other site 985002003428 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 985002003429 Translation-initiation factor 2; Region: IF-2; pfam11987 985002003430 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 985002003431 Ribosome-binding factor A; Region: RBFA; cl00542 985002003432 tRNA pseudouridine synthase B; Provisional; Region: PRK14123 985002003433 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 985002003434 RNA binding site [nucleotide binding]; other site 985002003435 active site 985002003436 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 985002003437 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 985002003438 active site 985002003439 Riboflavin kinase; Region: Flavokinase; cl03312 985002003440 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 985002003441 16S/18S rRNA binding site [nucleotide binding]; other site 985002003442 S13e-L30e interaction site [polypeptide binding]; other site 985002003443 25S rRNA binding site [nucleotide binding]; other site 985002003444 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 985002003445 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 985002003446 RNase E interface [polypeptide binding]; other site 985002003447 trimer interface [polypeptide binding]; other site 985002003448 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 985002003449 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 985002003450 RNase E interface [polypeptide binding]; other site 985002003451 trimer interface [polypeptide binding]; other site 985002003452 active site 985002003453 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 985002003454 putative nucleic acid binding region [nucleotide binding]; other site 985002003455 G-X-X-G motif; other site 985002003456 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 985002003457 RNA binding site [nucleotide binding]; other site 985002003458 domain interface; other site 985002003459 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 985002003460 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002003461 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 985002003462 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 985002003463 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 985002003464 GNL3L/Grn1 putative GTPase; Region: GN3L_Grn1; pfam08701 985002003465 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002003466 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 985002003467 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 985002003468 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 985002003469 Helix-turn-helix domains; Region: HTH; cl00088 985002003470 UTRA domain; Region: UTRA; cl01230 985002003471 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 985002003472 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 985002003473 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 985002003474 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 985002003475 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 985002003476 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 985002003477 classical (c) SDRs; Region: SDR_c; cd05233 985002003478 NAD(P) binding site [chemical binding]; other site 985002003479 active site 985002003480 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 985002003481 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 985002003482 non-specific DNA binding site [nucleotide binding]; other site 985002003483 salt bridge; other site 985002003484 sequence-specific DNA binding site [nucleotide binding]; other site 985002003485 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 985002003486 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 985002003487 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 985002003488 putative MPT binding site; other site 985002003489 recombinase A; Provisional; Region: recA; PRK09354 985002003490 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 985002003491 hexamer interface [polypeptide binding]; other site 985002003492 Walker A motif; other site 985002003493 ATP binding site [chemical binding]; other site 985002003494 Walker B motif; other site 985002003495 phosphodiesterase; Provisional; Region: PRK12704 985002003496 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 985002003497 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 985002003498 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 985002003499 putative active site [active] 985002003500 metal binding site [ion binding]; metal-binding site 985002003501 homodimer binding site [polypeptide binding]; other site 985002003502 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 985002003503 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 985002003504 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 985002003505 dimer interface [polypeptide binding]; other site 985002003506 PYR/PP interface [polypeptide binding]; other site 985002003507 TPP binding site [chemical binding]; other site 985002003508 substrate binding site [chemical binding]; other site 985002003509 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 985002003510 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 985002003511 TPP-binding site [chemical binding]; other site 985002003512 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 985002003513 Domain of unknown function DUF77; Region: DUF77; cl00307 985002003514 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 985002003515 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 985002003516 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 985002003517 FeS/SAM binding site; other site 985002003518 TRAM domain; Region: TRAM; cl01282 985002003519 Protein of unknown function (DUF964); Region: DUF964; cl01483 985002003520 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 985002003521 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 985002003522 MutS domain I; Region: MutS_I; pfam01624 985002003523 MutS domain II; Region: MutS_II; pfam05188 985002003524 MutS family domain IV; Region: MutS_IV; pfam05190 985002003525 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 985002003526 Walker A/P-loop; other site 985002003527 ATP binding site [chemical binding]; other site 985002003528 Q-loop/lid; other site 985002003529 ABC transporter signature motif; other site 985002003530 Walker B; other site 985002003531 D-loop; other site 985002003532 H-loop/switch region; other site 985002003533 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 985002003534 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 985002003535 ATP binding site [chemical binding]; other site 985002003536 Mg2+ binding site [ion binding]; other site 985002003537 G-X-G motif; other site 985002003538 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 985002003539 ATP binding site [chemical binding]; other site 985002003540 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 985002003541 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 985002003542 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 985002003543 amphipathic channel; other site 985002003544 Asn-Pro-Ala signature motifs; other site 985002003545 glycerol kinase; Provisional; Region: glpK; PRK00047 985002003546 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 985002003547 N- and C-terminal domain interface [polypeptide binding]; other site 985002003548 active site 985002003549 MgATP binding site [chemical binding]; other site 985002003550 catalytic site [active] 985002003551 metal binding site [ion binding]; metal-binding site 985002003552 glycerol binding site [chemical binding]; other site 985002003553 homotetramer interface [polypeptide binding]; other site 985002003554 homodimer interface [polypeptide binding]; other site 985002003555 FBP binding site [chemical binding]; other site 985002003556 protein IIAGlc interface [polypeptide binding]; other site 985002003557 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 985002003558 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 985002003559 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; cl12031 985002003560 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; cl12031 985002003561 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 985002003562 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002003563 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 985002003564 Sm1 motif; other site 985002003565 D1 - D2 interaction site; other site 985002003566 D3 - B interaction site; other site 985002003567 Hfq - Hfq interaction site; other site 985002003568 RNA binding pocket [nucleotide binding]; other site 985002003569 Sm2 motif; other site 985002003570 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 985002003571 catalytic residues [active] 985002003572 dimer interface [polypeptide binding]; other site 985002003573 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 985002003574 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 985002003575 HflX GTPase family; Region: HflX; cd01878 985002003576 G1 box; other site 985002003577 GTP/Mg2+ binding site [chemical binding]; other site 985002003578 Switch I region; other site 985002003579 G2 box; other site 985002003580 G3 box; other site 985002003581 Switch II region; other site 985002003582 G4 box; other site 985002003583 G5 box; other site 985002003584 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 985002003585 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 985002003586 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985002003587 catalytic residue [active] 985002003588 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 985002003589 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985002003590 DNA binding residues [nucleotide binding] 985002003591 putative dimer interface [polypeptide binding]; other site 985002003592 glutamine synthetase, type I; Region: GlnA; TIGR00653 985002003593 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 985002003594 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 985002003595 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 985002003596 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 985002003597 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 985002003598 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 985002003599 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 985002003600 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 985002003601 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985002003602 catalytic residue [active] 985002003603 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 985002003604 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 985002003605 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 985002003606 putative active site [active] 985002003607 catalytic site [active] 985002003608 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 985002003609 putative active site [active] 985002003610 catalytic site [active] 985002003611 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985002003612 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 985002003613 Walker A/P-loop; other site 985002003614 ATP binding site [chemical binding]; other site 985002003615 Q-loop/lid; other site 985002003616 ABC transporter signature motif; other site 985002003617 Walker B; other site 985002003618 D-loop; other site 985002003619 H-loop/switch region; other site 985002003620 ABC-2 type transporter; Region: ABC2_membrane; cl11417 985002003621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985002003622 Histidine kinase; Region: HisKA_3; pfam07730 985002003623 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 985002003624 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985002003625 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 985002003626 active site 985002003627 phosphorylation site [posttranslational modification] 985002003628 intermolecular recognition site; other site 985002003629 dimerization interface [polypeptide binding]; other site 985002003630 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 985002003631 DNA binding residues [nucleotide binding] 985002003632 dimerization interface [polypeptide binding]; other site 985002003633 Staphylococcal nuclease homologues; Region: SNc; smart00318 985002003634 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 985002003635 Catalytic site; other site 985002003636 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002003637 aspartate kinase; Reviewed; Region: PRK09034 985002003638 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 985002003639 putative catalytic residues [active] 985002003640 putative nucleotide binding site [chemical binding]; other site 985002003641 putative aspartate binding site [chemical binding]; other site 985002003642 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 985002003643 allosteric regulatory residue; other site 985002003644 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 985002003645 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 985002003646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002003647 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 985002003648 threonine synthase; Reviewed; Region: PRK06721 985002003649 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 985002003650 homodimer interface [polypeptide binding]; other site 985002003651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002003652 catalytic residue [active] 985002003653 homoserine kinase; Provisional; Region: PRK01212 985002003654 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 985002003655 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985002003656 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 985002003657 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985002003658 active site 985002003659 motif I; other site 985002003660 motif II; other site 985002003661 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 985002003662 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 985002003663 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 985002003664 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 985002003665 tetramer interface [polypeptide binding]; other site 985002003666 heme binding pocket [chemical binding]; other site 985002003667 NADPH binding site [chemical binding]; other site 985002003668 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 985002003669 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 985002003670 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 985002003671 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 the guanine...; Region: IMPDH; cd00381 985002003672 active site 985002003673 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 985002003674 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 985002003675 LexA repressor; Validated; Region: PRK00215 985002003676 Helix-turn-helix domains; Region: HTH; cl00088 985002003677 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 985002003678 Catalytic site [active] 985002003679 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 985002003680 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 985002003681 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 985002003682 TPP-binding site [chemical binding]; other site 985002003683 dimer interface [polypeptide binding]; other site 985002003684 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 985002003685 PYR/PP interface [polypeptide binding]; other site 985002003686 dimer interface [polypeptide binding]; other site 985002003687 TPP binding site [chemical binding]; other site 985002003688 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985002003689 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 985002003690 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 985002003691 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 985002003692 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 985002003693 active site 985002003694 metal binding site [ion binding]; metal-binding site 985002003695 DNA binding site [nucleotide binding] 985002003696 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 985002003697 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 985002003698 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 985002003699 Walker A/P-loop; other site 985002003700 ATP binding site [chemical binding]; other site 985002003701 Q-loop/lid; other site 985002003702 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 985002003703 ABC transporter signature motif; other site 985002003704 Walker B; other site 985002003705 D-loop; other site 985002003706 H-loop/switch region; other site 985002003707 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 985002003708 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 985002003709 BCCT family transporter; Region: BCCT; cl00569 985002003710 aconitate hydratase; Validated; Region: PRK09277 985002003711 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 985002003712 substrate binding site [chemical binding]; other site 985002003713 ligand binding site [chemical binding]; other site 985002003714 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 985002003715 substrate binding site [chemical binding]; other site 985002003716 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 985002003717 active site 985002003718 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 985002003719 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 985002003720 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 985002003721 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 985002003722 ATP binding site [chemical binding]; other site 985002003723 Mg2+ binding site [ion binding]; other site 985002003724 G-X-G motif; other site 985002003725 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 985002003726 anchoring element; other site 985002003727 dimer interface [polypeptide binding]; other site 985002003728 ATP binding site [chemical binding]; other site 985002003729 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 985002003730 active site 985002003731 putative metal-binding site [ion binding]; other site 985002003732 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 985002003733 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 985002003734 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 in DNA...; Region: TOP4c; cd00187 985002003735 CAP-like domain; other site 985002003736 active site 985002003737 primary dimer interface [polypeptide binding]; other site 985002003738 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985002003739 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 985002003740 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 985002003741 CAT RNA binding domain; Region: CAT_RBD; cl03904 985002003742 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985002003743 PRD domain; Region: PRD; cl15445 985002003744 PRD domain; Region: PRD; cl15445 985002003745 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 985002003746 Domain of unknown function DUF20; Region: UPF0118; pfam01594 985002003747 Predicted integral membrane protein [Function unknown]; Region: COG0392 985002003748 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 985002003749 Uncharacterized conserved protein [Function unknown]; Region: COG2898 985002003750 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 985002003751 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 985002003752 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 985002003753 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 985002003754 active site 1 [active] 985002003755 dimer interface [polypeptide binding]; other site 985002003756 hexamer interface [polypeptide binding]; other site 985002003757 active site 2 [active] 985002003758 DNA polymerase IV; Reviewed; Region: PRK03103 985002003759 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 985002003760 active site 985002003761 DNA binding site [nucleotide binding] 985002003762 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 985002003763 prephenate dehydrogenase; Validated; Region: PRK06545 985002003764 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002003765 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 985002003766 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 985002003767 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 985002003768 metal binding site [ion binding]; metal-binding site 985002003769 anthranilate synthase component I; Provisional; Region: PRK13567 985002003770 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 985002003771 chorismate binding enzyme; Region: Chorismate_bind; cl10555 985002003772 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 985002003773 Glutamine amidotransferase class-I; Region: GATase; pfam00117 985002003774 glutamine binding [chemical binding]; other site 985002003775 catalytic triad [active] 985002003776 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 985002003777 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 985002003778 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 985002003779 active site 985002003780 ribulose/triose binding site [chemical binding]; other site 985002003781 phosphate binding site [ion binding]; other site 985002003782 substrate (anthranilate) binding pocket [chemical binding]; other site 985002003783 product (indole) binding pocket [chemical binding]; other site 985002003784 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 monomeric; Region: PRAI; cd00405 985002003785 active site 985002003786 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 985002003787 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 985002003788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002003789 catalytic residue [active] 985002003790 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 985002003791 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 985002003792 substrate binding site [chemical binding]; other site 985002003793 active site 985002003794 catalytic residues [active] 985002003795 heterodimer interface [polypeptide binding]; other site 985002003796 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002003797 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002003798 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 985002003799 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 985002003800 active site 985002003801 motif I; other site 985002003802 motif II; other site 985002003803 SWIM zinc finger; Region: SWIM; cl15408 985002003804 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985002003805 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 985002003806 Walker A/P-loop; other site 985002003807 ATP binding site [chemical binding]; other site 985002003808 Q-loop/lid; other site 985002003809 ABC transporter signature motif; other site 985002003810 Walker B; other site 985002003811 D-loop; other site 985002003812 H-loop/switch region; other site 985002003813 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 985002003814 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 985002003815 Walker A/P-loop; other site 985002003816 ATP binding site [chemical binding]; other site 985002003817 Q-loop/lid; other site 985002003818 ABC transporter signature motif; other site 985002003819 Walker B; other site 985002003820 D-loop; other site 985002003821 H-loop/switch region; other site 985002003822 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 985002003823 dimer interface [polypeptide binding]; other site 985002003824 conserved gate region; other site 985002003825 putative PBP binding loops; other site 985002003826 ABC-ATPase subunit interface; other site 985002003827 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985002003828 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 985002003829 oligoendopeptidase F; Region: pepF; TIGR00181 985002003830 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 985002003831 active site 985002003832 Zn binding site [ion binding]; other site 985002003833 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 985002003834 PhoU domain; Region: PhoU; pfam01895 985002003835 PhoU domain; Region: PhoU; pfam01895 985002003836 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 985002003837 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 985002003838 Walker A/P-loop; other site 985002003839 ATP binding site [chemical binding]; other site 985002003840 Q-loop/lid; other site 985002003841 ABC transporter signature motif; other site 985002003842 Walker B; other site 985002003843 D-loop; other site 985002003844 H-loop/switch region; other site 985002003845 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 985002003846 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 985002003847 dimer interface [polypeptide binding]; other site 985002003848 conserved gate region; other site 985002003849 putative PBP binding loops; other site 985002003850 ABC-ATPase subunit interface; other site 985002003851 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 985002003852 dimer interface [polypeptide binding]; other site 985002003853 conserved gate region; other site 985002003854 ABC-ATPase subunit interface; other site 985002003855 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 985002003856 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 985002003857 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 985002003858 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 985002003859 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 985002003860 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 985002003861 ABC transporter; Region: ABC_tran_2; pfam12848 985002003862 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 985002003863 aspartate kinase; Reviewed; Region: PRK06635 985002003864 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 985002003865 putative nucleotide binding site [chemical binding]; other site 985002003866 putative catalytic residues [active] 985002003867 putative Mg ion binding site [ion binding]; other site 985002003868 putative aspartate binding site [chemical binding]; other site 985002003869 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 985002003870 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 985002003871 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 985002003872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002003873 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 985002003874 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 985002003875 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 985002003876 dimer interface [polypeptide binding]; other site 985002003877 active site 985002003878 catalytic residue [active] 985002003879 dihydrodipicolinate reductase; Provisional; Region: PRK00048 985002003880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002003881 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 985002003882 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 985002003883 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 985002003884 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 985002003885 active site 985002003886 trimer interface [polypeptide binding]; other site 985002003887 substrate binding site [chemical binding]; other site 985002003888 CoA binding site [chemical binding]; other site 985002003889 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985002003890 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985002003891 metal binding site [ion binding]; metal-binding site 985002003892 dimer interface [polypeptide binding]; other site 985002003893 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 985002003894 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 985002003895 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985002003896 catalytic residue [active] 985002003897 diaminopimelate decarboxylase; Region: lysA; TIGR01048 985002003898 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 985002003899 active site 985002003900 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985002003901 substrate binding site [chemical binding]; other site 985002003902 catalytic residues [active] 985002003903 dimer interface [polypeptide binding]; other site 985002003904 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 protein; Region: CSP_CDS; cd04458 985002003905 DNA-binding site [nucleotide binding]; DNA binding site 985002003906 RNA-binding motif; other site 985002003907 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 985002003908 Acylphosphatase; Region: Acylphosphatase; cl00551 985002003909 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 985002003910 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 985002003911 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 985002003912 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 985002003913 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 985002003914 metal ion-dependent adhesion site (MIDAS); other site 985002003915 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 985002003916 Walker A motif; other site 985002003917 ATP binding site [chemical binding]; other site 985002003918 Walker B motif; other site 985002003919 arginine finger; other site 985002003920 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 985002003921 active site 985002003922 metal binding site [ion binding]; metal-binding site 985002003923 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 985002003924 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 985002003925 E3 interaction surface; other site 985002003926 lipoyl attachment site [posttranslational modification]; other site 985002003927 e3 binding domain; Region: E3_binding; pfam02817 985002003928 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 985002003929 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 985002003930 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 985002003931 TPP-binding site [chemical binding]; other site 985002003932 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 round of...; Region: RRF; cl00240 985002003933 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 985002003934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985002003935 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 985002003936 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 985002003937 dimer interface [polypeptide binding]; other site 985002003938 phosphorylation site [posttranslational modification] 985002003939 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 985002003940 ATP binding site [chemical binding]; other site 985002003941 G-X-G motif; other site 985002003942 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985002003943 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 985002003944 active site 985002003945 phosphorylation site [posttranslational modification] 985002003946 intermolecular recognition site; other site 985002003947 dimerization interface [polypeptide binding]; other site 985002003948 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 985002003949 DNA binding site [nucleotide binding] 985002003950 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 985002003951 active site 985002003952 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 985002003953 active site 985002003954 homodimer interface [polypeptide binding]; other site 985002003955 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 985002003956 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002003957 DDE superfamily endonuclease; Region: DDE_4; cl15789 985002003958 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985002003959 DDE superfamily endonuclease; Region: DDE_4; cl15789 985002003960 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 985002003961 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 985002003962 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 985002003963 protein binding site [polypeptide binding]; other site 985002003964 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 985002003965 Catalytic dyad [active] 985002003966 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 985002003967 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 985002003968 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; cl00162 985002003969 HPr interaction site; other site 985002003970 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985002003971 active site 985002003972 phosphorylation site [posttranslational modification] 985002003973 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 985002003974 SelR domain; Region: SelR; pfam01641 985002003975 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 985002003976 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 985002003977 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 985002003978 folate binding site [chemical binding]; other site 985002003979 NADP+ binding site [chemical binding]; other site 985002003980 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 985002003981 dimerization interface [polypeptide binding]; other site 985002003982 active site 985002003983 Disulphide isomerase; Region: Disulph_isomer; cl05813 985002003984 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 985002003985 Virulence factor; Region: Virulence_fact; pfam13769 985002003986 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 985002003987 HEAT repeat; Region: HEAT; pfam02985 985002003988 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 985002003989 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 985002003990 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 985002003991 RNA/DNA hybrid binding site [nucleotide binding]; other site 985002003992 active site 985002003993 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002003994 hyperosmolarity resistance protein Ebh, N-terminal domain; Region: hyperosmo_Ebh; TIGR04264 985002003995 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 985002003996 GA module; Region: GA; cl08325 985002003997 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 985002003998 GA module; Region: GA; cl08325 985002003999 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 985002004000 GA module; Region: GA; cl08325 985002004001 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 985002004002 GA module; Region: GA; cl08325 985002004003 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 985002004004 GA module; Region: GA; cl08325 985002004005 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 985002004006 GA module; Region: GA; cl08325 985002004007 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 985002004008 GA module; Region: GA; cl08325 985002004009 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 985002004010 GA module; Region: GA; cl08325 985002004011 GA module; Region: GA; cl08325 985002004012 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 985002004013 GA module; Region: GA; cl08325 985002004014 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 985002004015 GA module; Region: GA; cl08325 985002004016 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985002004017 L-type amino acid transporter; Region: 2A0308; TIGR00911 985002004018 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 985002004019 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 985002004020 tetramer interface [polypeptide binding]; other site 985002004021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002004022 catalytic residue [active] 985002004023 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 985002004024 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 985002004025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002004026 5'-3' exonuclease; Region: 53EXOc; smart00475 985002004027 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 985002004028 active site 985002004029 metal binding site 1 [ion binding]; metal-binding site 985002004030 putative 5' ssDNA interaction site; other site 985002004031 metal binding site 3; metal-binding site 985002004032 metal binding site 2 [ion binding]; metal-binding site 985002004033 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 985002004034 putative DNA binding site [nucleotide binding]; other site 985002004035 putative metal binding site [ion binding]; other site 985002004036 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 985002004037 Dynamin family; Region: Dynamin_N; pfam00350 985002004038 G1 box; other site 985002004039 GTP/Mg2+ binding site [chemical binding]; other site 985002004040 G2 box; other site 985002004041 Switch I region; other site 985002004042 G3 box; other site 985002004043 Switch II region; other site 985002004044 G4 box; other site 985002004045 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002004046 Dynamin family; Region: Dynamin_N; pfam00350 985002004047 G1 box; other site 985002004048 GTP/Mg2+ binding site [chemical binding]; other site 985002004049 G2 box; other site 985002004050 Switch I region; other site 985002004051 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002004052 G3 box; other site 985002004053 Switch II region; other site 985002004054 GTP/Mg2+ binding site [chemical binding]; other site 985002004055 G4 box; other site 985002004056 G5 box; other site 985002004057 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 985002004058 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 985002004059 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 985002004060 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 985002004061 THUMP domain; Region: THUMP; cl12076 985002004062 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; cl16911 985002004063 cell division protein GpsB; Provisional; Region: PRK14127 985002004064 DivIVA domain; Region: DivI1A_domain; TIGR03544 985002004065 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 985002004066 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 985002004067 Recombination protein U; Region: RecU; cl01314 985002004068 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 985002004069 Transglycosylase; Region: Transgly; cl07896 985002004070 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 985002004071 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 985002004072 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 985002004073 minor groove reading motif; other site 985002004074 helix-hairpin-helix signature motif; other site 985002004075 substrate binding pocket [chemical binding]; other site 985002004076 active site 985002004077 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 985002004078 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 985002004079 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 985002004080 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 985002004081 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 985002004082 putative dimer interface [polypeptide binding]; other site 985002004083 putative anticodon binding site; other site 985002004084 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 985002004085 homodimer interface [polypeptide binding]; other site 985002004086 motif 1; other site 985002004087 motif 2; other site 985002004088 active site 985002004089 motif 3; other site 985002004090 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 985002004091 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 985002004092 active site 985002004093 catalytic site [active] 985002004094 substrate binding site [chemical binding]; other site 985002004095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002004096 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002004097 Helix-turn-helix domains; Region: HTH; cl00088 985002004098 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 985002004099 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 985002004100 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 985002004101 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 985002004102 active site 985002004103 NTP binding site [chemical binding]; other site 985002004104 metal binding triad [ion binding]; metal-binding site 985002004105 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 985002004106 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 985002004107 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 985002004108 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 985002004109 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 985002004110 homodimer interface [polypeptide binding]; other site 985002004111 metal binding site [ion binding]; metal-binding site 985002004112 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 985002004113 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 985002004114 Uncharacterized conserved protein [Function unknown]; Region: COG5582 985002004115 UPF0302 domain; Region: UPF0302; pfam08864 985002004116 IDEAL domain; Region: IDEAL; cl07452 985002004117 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15179 985002004118 TPR repeat; Region: TPR_11; pfam13414 985002004119 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 985002004120 binding surface 985002004121 TPR motif; other site 985002004122 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 985002004123 binding surface 985002004124 TPR motif; other site 985002004125 tetratricopeptide repeat protein; Provisional; Region: PRK11788 985002004126 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 985002004127 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 985002004128 hinge; other site 985002004129 active site 985002004130 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 985002004131 active site 985002004132 NAD binding site [chemical binding]; other site 985002004133 metal binding site [ion binding]; metal-binding site 985002004134 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 985002004135 Tetramer interface [polypeptide binding]; other site 985002004136 active site 985002004137 FMN-binding site [chemical binding]; other site 985002004138 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 985002004139 active site 985002004140 multimer interface [polypeptide binding]; other site 985002004141 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 985002004142 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 985002004143 substrate binding pocket [chemical binding]; other site 985002004144 chain length determination region; other site 985002004145 substrate-Mg2+ binding site; other site 985002004146 catalytic residues [active] 985002004147 aspartate-rich region 1; other site 985002004148 active site lid residues [active] 985002004149 aspartate-rich region 2; other site 985002004150 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 985002004151 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 985002004152 S-adenosylmethionine binding site [chemical binding]; other site 985002004153 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 985002004154 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 985002004155 IHF dimer interface [polypeptide binding]; other site 985002004156 IHF - DNA interface [nucleotide binding]; other site 985002004157 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 985002004158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002004159 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 985002004160 GTP-binding protein Der; Reviewed; Region: PRK00093 985002004161 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 985002004162 G1 box; other site 985002004163 GTP/Mg2+ binding site [chemical binding]; other site 985002004164 Switch I region; other site 985002004165 G2 box; other site 985002004166 Switch II region; other site 985002004167 G3 box; other site 985002004168 G4 box; other site 985002004169 G5 box; other site 985002004170 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 985002004171 G1 box; other site 985002004172 GTP/Mg2+ binding site [chemical binding]; other site 985002004173 Switch I region; other site 985002004174 G2 box; other site 985002004175 G3 box; other site 985002004176 Switch II region; other site 985002004177 G4 box; other site 985002004178 G5 box; other site 985002004179 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 985002004180 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 985002004181 RNA binding site [nucleotide binding]; other site 985002004182 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 985002004183 RNA binding site [nucleotide binding]; other site 985002004184 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 985002004185 RNA binding site [nucleotide binding]; other site 985002004186 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 985002004187 RNA binding site [nucleotide binding]; other site 985002004188 cytidylate kinase; Provisional; Region: cmk; PRK00023 985002004189 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 985002004190 CMP-binding site; other site 985002004191 The sites determining sugar specificity; other site 985002004192 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 985002004193 active site 985002004194 homotetramer interface [polypeptide binding]; other site 985002004195 homodimer interface [polypeptide binding]; other site 985002004196 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 985002004197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002004198 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985002004199 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 985002004200 ATP-dependent DNA helicase, RecQ family; Region: recQ_fam; TIGR00614 985002004201 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 985002004202 ATP binding site [chemical binding]; other site 985002004203 putative Mg++ binding site [ion binding]; other site 985002004204 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 985002004205 nucleotide binding region [chemical binding]; other site 985002004206 ATP-binding site [chemical binding]; other site 985002004207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 985002004208 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 985002004209 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 985002004210 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 985002004211 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 985002004212 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 985002004213 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 985002004214 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 985002004215 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 985002004216 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 985002004217 dimerization interface [polypeptide binding]; other site 985002004218 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 985002004219 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 985002004220 dimer interface [polypeptide binding]; other site 985002004221 phosphorylation site [posttranslational modification] 985002004222 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 985002004223 ATP binding site [chemical binding]; other site 985002004224 Mg2+ binding site [ion binding]; other site 985002004225 G-X-G motif; other site 985002004226 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985002004227 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 985002004228 active site 985002004229 phosphorylation site [posttranslational modification] 985002004230 intermolecular recognition site; other site 985002004231 dimerization interface [polypeptide binding]; other site 985002004232 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 985002004233 DNA binding site [nucleotide binding] 985002004234 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 985002004235 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 985002004236 RNA binding surface [nucleotide binding]; other site 985002004237 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 985002004238 active site 985002004239 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 985002004240 ScpA/B protein; Region: ScpA_ScpB; cl00598 985002004241 Domain of unknown function (DUF309); Region: DUF309; cl00667 985002004242 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 985002004243 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 985002004244 active site 985002004245 Int/Topo IB signature motif; other site 985002004246 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 985002004247 metal binding site 2 [ion binding]; metal-binding site 985002004248 putative DNA binding helix; other site 985002004249 metal binding site 1 [ion binding]; metal-binding site 985002004250 dimer interface [polypeptide binding]; other site 985002004251 structural Zn2+ binding site [ion binding]; other site 985002004252 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 985002004253 dimer interface [polypeptide binding]; other site 985002004254 ADP-ribose binding site [chemical binding]; other site 985002004255 active site 985002004256 nudix motif; other site 985002004257 metal binding site [ion binding]; metal-binding site 985002004258 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 985002004259 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 985002004260 active site 985002004261 catalytic tetrad [active] 985002004262 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 985002004263 classical (c) SDRs; Region: SDR_c; cd05233 985002004264 NAD(P) binding site [chemical binding]; other site 985002004265 active site 985002004266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002004267 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 985002004268 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002004269 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 985002004270 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 985002004271 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 985002004272 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985002004273 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 985002004274 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 985002004275 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 985002004276 Ca binding site [ion binding]; other site 985002004277 active site 985002004278 catalytic site [active] 985002004279 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985002004280 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985002004281 DNA binding site [nucleotide binding] 985002004282 domain linker motif; other site 985002004283 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 985002004284 putative ligand binding site [chemical binding]; other site 985002004285 putative dimerization interface [polypeptide binding]; other site 985002004286 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985002004287 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 985002004288 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 985002004289 H+ Antiporter protein; Region: 2A0121; TIGR00900 985002004290 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 985002004291 putative substrate translocation pore; other site 985002004292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002004293 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 985002004294 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 985002004295 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 985002004296 peptidase T-like protein; Region: PepT-like; TIGR01883 985002004297 metal binding site [ion binding]; metal-binding site 985002004298 putative dimer interface [polypeptide binding]; other site 985002004299 Predicted membrane protein [Function unknown]; Region: COG4129 985002004300 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 985002004301 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 985002004302 Disulphide isomerase; Region: Disulph_isomer; cl05813 985002004303 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 985002004304 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 985002004305 E3 interaction surface; other site 985002004306 lipoyl attachment site [posttranslational modification]; other site 985002004307 e3 binding domain; Region: E3_binding; pfam02817 985002004308 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 985002004309 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 985002004310 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 985002004311 alpha subunit interface [polypeptide binding]; other site 985002004312 TPP binding site [chemical binding]; other site 985002004313 heterodimer interface [polypeptide binding]; other site 985002004314 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985002004315 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 985002004316 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 985002004317 tetramer interface [polypeptide binding]; other site 985002004318 TPP-binding site [chemical binding]; other site 985002004319 heterodimer interface [polypeptide binding]; other site 985002004320 phosphorylation loop region [posttranslational modification] 985002004321 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 985002004322 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 985002004323 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985002004324 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985002004325 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 985002004326 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 985002004327 Walker A/P-loop; other site 985002004328 ATP binding site [chemical binding]; other site 985002004329 Q-loop/lid; other site 985002004330 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 985002004331 Q-loop/lid; other site 985002004332 ABC transporter signature motif; other site 985002004333 Walker B; other site 985002004334 D-loop; other site 985002004335 H-loop/switch region; other site 985002004336 arginine repressor; Provisional; Region: PRK04280 985002004337 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 985002004338 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 985002004339 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 985002004340 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 985002004341 substrate binding pocket [chemical binding]; other site 985002004342 chain length determination region; other site 985002004343 substrate-Mg2+ binding site; other site 985002004344 catalytic residues [active] 985002004345 aspartate-rich region 1; other site 985002004346 active site lid residues [active] 985002004347 aspartate-rich region 2; other site 985002004348 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 985002004349 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 985002004350 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 985002004351 generic binding surface II; other site 985002004352 generic binding surface I; other site 985002004353 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 985002004354 putative RNA binding site [nucleotide binding]; other site 985002004355 Asp23 family; Region: Asp23; cl00574 985002004356 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 985002004357 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985002004358 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 985002004359 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 985002004360 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 985002004361 carboxyltransferase (CT) interaction site; other site 985002004362 biotinylation site [posttranslational modification]; other site 985002004363 elongation factor P; Validated; Region: PRK00529 985002004364 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 985002004365 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 985002004366 RNA binding site [nucleotide binding]; other site 985002004367 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 985002004368 RNA binding site [nucleotide binding]; other site 985002004369 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 985002004370 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 985002004371 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 985002004372 active site 985002004373 Axonemal dynein light chain; Region: Ax_dynein_light; pfam10211 985002004374 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 985002004375 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 985002004376 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 985002004377 active site residue [active] 985002004378 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 985002004379 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 985002004380 tetramer interface [polypeptide binding]; other site 985002004381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002004382 catalytic residue [active] 985002004383 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 985002004384 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 985002004385 tetramer interface [polypeptide binding]; other site 985002004386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002004387 catalytic residue [active] 985002004388 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 985002004389 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 985002004390 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 985002004391 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 985002004392 ADP binding site [chemical binding]; other site 985002004393 magnesium binding site [ion binding]; other site 985002004394 putative shikimate binding site; other site 985002004395 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 985002004396 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 985002004397 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 985002004398 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 985002004399 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 985002004400 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 985002004401 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 985002004402 Type II/IV secretion system protein; Region: T2SE; pfam00437 985002004403 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002004404 Walker A motif; other site 985002004405 ATP binding site [chemical binding]; other site 985002004406 Walker B motif; other site 985002004407 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002004408 Domain of unknown function DUF77; Region: DUF77; cl00307 985002004409 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 985002004410 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 985002004411 Rhomboid family; Region: Rhomboid; cl11446 985002004412 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 985002004413 binding surface 985002004414 TPR motif; other site 985002004415 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 985002004416 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 985002004417 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 985002004418 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 985002004419 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 985002004420 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 985002004421 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 985002004422 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 985002004423 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 985002004424 metal binding site 2 [ion binding]; metal-binding site 985002004425 putative DNA binding helix; other site 985002004426 metal binding site 1 [ion binding]; metal-binding site 985002004427 dimer interface [polypeptide binding]; other site 985002004428 structural Zn2+ binding site [ion binding]; other site 985002004429 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 985002004430 ABC-ATPase subunit interface; other site 985002004431 dimer interface [polypeptide binding]; other site 985002004432 putative PBP binding regions; other site 985002004433 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 985002004434 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 985002004435 endonuclease IV; Provisional; Region: PRK01060 985002004436 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 985002004437 AP (apurinic/apyrimidinic) site pocket; other site 985002004438 DNA interaction; other site 985002004439 Metal-binding active site; metal-binding site 985002004440 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 985002004441 DEAD-like helicases superfamily; Region: DEXDc; smart00487 985002004442 ATP binding site [chemical binding]; other site 985002004443 Mg++ binding site [ion binding]; other site 985002004444 motif III; other site 985002004445 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 985002004446 nucleotide binding region [chemical binding]; other site 985002004447 ATP-binding site [chemical binding]; other site 985002004448 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 985002004449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 985002004450 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 985002004451 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; cl16911 985002004452 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 985002004453 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 985002004454 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 985002004455 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985002004456 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 985002004457 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 985002004458 DNA binding residues [nucleotide binding] 985002004459 DNA primase, catalytic core; Region: dnaG; TIGR01391 985002004460 CHC2 zinc finger; Region: zf-CHC2; cl15369 985002004461 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 985002004462 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 985002004463 active site 985002004464 metal binding site [ion binding]; metal-binding site 985002004465 interdomain interaction site; other site 985002004466 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 985002004467 FOG: CBS domain [General function prediction only]; Region: COG0517 985002004468 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 985002004469 glycyl-tRNA synthetase; Provisional; Region: PRK04173 985002004470 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 attaches...; Region: class_II_aaRS-like_core; cl00268 985002004471 motif 1; other site 985002004472 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 985002004473 active site 985002004474 motif 2; other site 985002004475 motif 3; other site 985002004476 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 985002004477 anticodon binding site; other site 985002004478 DNA repair protein RecO; Region: reco; TIGR00613 985002004479 Recombination protein O N terminal; Region: RecO_N; cl15812 985002004480 Recombination protein O C terminal; Region: RecO_C; pfam02565 985002004481 GTPase Era; Reviewed; Region: era; PRK00089 985002004482 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 985002004483 G1 box; other site 985002004484 GTP/Mg2+ binding site [chemical binding]; other site 985002004485 Switch I region; other site 985002004486 G2 box; other site 985002004487 Switch II region; other site 985002004488 G3 box; other site 985002004489 G4 box; other site 985002004490 G5 box; other site 985002004491 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 985002004492 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 985002004493 active site 985002004494 catalytic motif [active] 985002004495 Zn binding site [ion binding]; other site 985002004496 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 985002004497 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 985002004498 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 985002004499 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002004500 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 985002004501 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 985002004502 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 985002004503 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 985002004504 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 985002004505 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 985002004506 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 985002004507 FeS/SAM binding site; other site 985002004508 TRAM domain; Region: TRAM; cl01282 985002004509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 985002004510 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 985002004511 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 985002004512 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 985002004513 S-adenosylmethionine binding site [chemical binding]; other site 985002004514 chaperone protein DnaJ; Provisional; Region: PRK14280 985002004515 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 985002004516 HSP70 interaction site [polypeptide binding]; other site 985002004517 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 985002004518 substrate binding site [polypeptide binding]; other site 985002004519 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 985002004520 Zn binding sites [ion binding]; other site 985002004521 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 985002004522 dimer interface [polypeptide binding]; other site 985002004523 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 985002004524 heat shock protein GrpE; Provisional; Region: PRK14140 985002004525 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 985002004526 dimer interface [polypeptide binding]; other site 985002004527 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 985002004528 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 985002004529 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 985002004530 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 985002004531 FeS/SAM binding site; other site 985002004532 HemN C-terminal domain; Region: HemN_C; pfam06969 985002004533 GTP-binding protein LepA; Provisional; Region: PRK05433 985002004534 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 985002004535 G1 box; other site 985002004536 putative GEF interaction site [polypeptide binding]; other site 985002004537 GTP/Mg2+ binding site [chemical binding]; other site 985002004538 Switch I region; other site 985002004539 G2 box; other site 985002004540 G3 box; other site 985002004541 Switch II region; other site 985002004542 G4 box; other site 985002004543 G5 box; other site 985002004544 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 985002004545 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 985002004546 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 985002004547 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 985002004548 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 985002004549 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 985002004550 Competence protein; Region: Competence; cl00471 985002004551 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002004552 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 985002004553 catalytic motif [active] 985002004554 Zn binding site [ion binding]; other site 985002004555 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 985002004556 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 985002004557 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 985002004558 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 985002004559 S-adenosylmethionine binding site [chemical binding]; other site 985002004560 Oligomerisation domain; Region: Oligomerisation; cl00519 985002004561 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 985002004562 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985002004563 Zn2+ binding site [ion binding]; other site 985002004564 Mg2+ binding site [ion binding]; other site 985002004565 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 985002004566 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 985002004567 active site 985002004568 (T/H)XGH motif; other site 985002004569 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 985002004570 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 985002004571 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 985002004572 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 985002004573 shikimate binding site; other site 985002004574 NAD(P) binding site [chemical binding]; other site 985002004575 GTPase YqeH; Provisional; Region: PRK13796 985002004576 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 985002004577 GTP/Mg2+ binding site [chemical binding]; other site 985002004578 G4 box; other site 985002004579 G5 box; other site 985002004580 G1 box; other site 985002004581 Switch I region; other site 985002004582 G2 box; other site 985002004583 G3 box; other site 985002004584 Switch II region; other site 985002004585 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 985002004586 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 985002004587 active site 985002004588 motif I; other site 985002004589 motif II; other site 985002004590 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 985002004591 Fic family protein [Function unknown]; Region: COG3177 985002004592 Fic/DOC family; Region: Fic; cl00960 985002004593 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 985002004594 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 985002004595 putative active site [active] 985002004596 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985002004597 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 985002004598 ATP-grasp domain; Region: ATP-grasp_4; cl03087 985002004599 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 985002004600 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 985002004601 carboxyltransferase (CT) interaction site; other site 985002004602 biotinylation site [posttranslational modification]; other site 985002004603 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 985002004604 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 985002004605 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 985002004606 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 985002004607 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 985002004608 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 985002004609 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 985002004610 Sugar specificity; other site 985002004611 Pyrimidine base specificity; other site 985002004612 ATP-binding site [chemical binding]; other site 985002004613 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 985002004614 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; cl09108 985002004615 Peptidase family U32; Region: Peptidase_U32; cl03113 985002004616 Peptidase family U32; Region: Peptidase_U32; cl03113 985002004617 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 985002004618 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 985002004619 S-adenosylmethionine binding site [chemical binding]; other site 985002004620 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 985002004621 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 985002004622 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 985002004623 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 985002004624 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 formation of...; Region: AlaRS_core; cd00673 985002004625 motif 1; other site 985002004626 active site 985002004627 motif 2; other site 985002004628 motif 3; other site 985002004629 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 985002004630 DHHA1 domain; Region: DHHA1; pfam02272 985002004631 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 985002004632 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002004633 Family description; Region: UvrD_C_2; cl15862 985002004634 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 985002004635 binding surface 985002004636 TPR repeat; Region: TPR_11; pfam13414 985002004637 TPR motif; other site 985002004638 Tetratricopeptide repeat; Region: TPR_16; pfam13432 985002004639 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 985002004640 binding surface 985002004641 TPR motif; other site 985002004642 TPR repeat; Region: TPR_11; pfam13414 985002004643 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 985002004644 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 985002004645 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 985002004646 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 985002004647 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985002004648 catalytic residue [active] 985002004649 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 985002004650 CsbD-like; Region: CsbD; cl15799 985002004651 Predicted transcriptional regulator [Transcription]; Region: COG1959 985002004652 Helix-turn-helix domains; Region: HTH; cl00088 985002004653 recombination factor protein RarA; Reviewed; Region: PRK13342 985002004654 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 985002004655 Walker A motif; other site 985002004656 ATP binding site [chemical binding]; other site 985002004657 Walker B motif; other site 985002004658 arginine finger; other site 985002004659 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 985002004660 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 985002004661 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 985002004662 putative ATP binding site [chemical binding]; other site 985002004663 putative substrate interface [chemical binding]; other site 985002004664 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 985002004665 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 985002004666 dimer interface [polypeptide binding]; other site 985002004667 anticodon binding site; other site 985002004668 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 the...; Region: AspRS_core; cd00777 985002004669 homodimer interface [polypeptide binding]; other site 985002004670 motif 1; other site 985002004671 active site 985002004672 motif 2; other site 985002004673 GAD domain; Region: GAD; pfam02938 985002004674 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 the...; Region: AspRS_core; cd00777 985002004675 motif 3; other site 985002004676 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 985002004677 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 ATP-dependent...; Region: HisRS-like_core; cd00773 985002004678 dimer interface [polypeptide binding]; other site 985002004679 motif 1; other site 985002004680 active site 985002004681 motif 2; other site 985002004682 motif 3; other site 985002004683 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 985002004684 anticodon binding site; other site 985002004685 Bacterial SH3 domain; Region: SH3_3; cl02551 985002004686 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 985002004687 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 985002004688 active site 985002004689 metal binding site [ion binding]; metal-binding site 985002004690 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 985002004691 putative active site [active] 985002004692 dimerization interface [polypeptide binding]; other site 985002004693 putative tRNAtyr binding site [nucleotide binding]; other site 985002004694 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 985002004695 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 985002004696 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 985002004697 synthetase active site [active] 985002004698 NTP binding site [chemical binding]; other site 985002004699 metal binding site [ion binding]; metal-binding site 985002004700 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 985002004701 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 985002004702 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985002004703 active site 985002004704 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 985002004705 DHH family; Region: DHH; pfam01368 985002004706 DHHA1 domain; Region: DHHA1; pfam02272 985002004707 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 985002004708 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 985002004709 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 985002004710 Protein export membrane protein; Region: SecD_SecF; cl14618 985002004711 Protein export membrane protein; Region: SecD_SecF; cl14618 985002004712 Preprotein translocase subunit; Region: YajC; cl00806 985002004713 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 985002004714 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 985002004715 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 985002004716 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 985002004717 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 985002004718 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 985002004719 Walker A motif; other site 985002004720 ATP binding site [chemical binding]; other site 985002004721 Walker B motif; other site 985002004722 arginine finger; other site 985002004723 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 985002004724 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 985002004725 RuvA N terminal domain; Region: RuvA_N; pfam01330 985002004726 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 985002004727 hypothetical protein; Provisional; Region: PRK04435 985002004728 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 985002004729 GTPase CgtA; Reviewed; Region: obgE; PRK12297 985002004730 GTP1/OBG; Region: GTP1_OBG; pfam01018 985002004731 Obg GTPase; Region: Obg; cd01898 985002004732 G1 box; other site 985002004733 GTP/Mg2+ binding site [chemical binding]; other site 985002004734 Switch I region; other site 985002004735 G2 box; other site 985002004736 G3 box; other site 985002004737 Switch II region; other site 985002004738 G4 box; other site 985002004739 G5 box; other site 985002004740 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 985002004741 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 985002004742 Protein of unknown function (DUF464); Region: DUF464; cl01080 985002004743 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 985002004744 rod shape-determining protein MreD; Region: MreD; cl01087 985002004745 rod shape-determining protein MreC; Provisional; Region: PRK13922 985002004746 rod shape-determining protein MreC; Region: MreC; pfam04085 985002004747 hypothetical protein; Reviewed; Region: PRK00024 985002004748 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 985002004749 MPN+ (JAMM) motif; other site 985002004750 Zinc-binding site [ion binding]; other site 985002004751 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 985002004752 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 985002004753 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 985002004754 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985002004755 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985002004756 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 985002004757 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 985002004758 active site 985002004759 HIGH motif; other site 985002004760 nucleotide binding site [chemical binding]; other site 985002004761 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 985002004762 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 985002004763 active site 985002004764 KMSKS motif; other site 985002004765 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 985002004766 tRNA binding surface [nucleotide binding]; other site 985002004767 anticodon binding site; other site 985002004768 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 985002004769 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 985002004770 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 985002004771 Putative ammonia monooxygenase; Region: AmoA; pfam05145 985002004772 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 985002004773 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 985002004774 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 985002004775 inhibitor-cofactor binding pocket; inhibition site 985002004776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002004777 catalytic residue [active] 985002004778 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 985002004779 dimer interface [polypeptide binding]; other site 985002004780 active site 985002004781 Schiff base residues; other site 985002004782 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 985002004783 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 985002004784 active site 985002004785 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 985002004786 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 985002004787 domain interfaces; other site 985002004788 active site 985002004789 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 985002004790 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 985002004791 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 985002004792 tRNA; other site 985002004793 putative tRNA binding site [nucleotide binding]; other site 985002004794 putative NADP binding site [chemical binding]; other site 985002004795 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 985002004796 Predicted GTPase [General function prediction only]; Region: COG0218 985002004797 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 985002004798 G1 box; other site 985002004799 GTP/Mg2+ binding site [chemical binding]; other site 985002004800 Switch I region; other site 985002004801 G2 box; other site 985002004802 G3 box; other site 985002004803 Switch II region; other site 985002004804 G4 box; other site 985002004805 G5 box; other site 985002004806 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 985002004807 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 985002004808 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002004809 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 985002004810 trigger factor; Provisional; Region: tig; PRK01490 985002004811 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 985002004812 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 985002004813 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 985002004814 nudix motif; other site 985002004815 ribosomal protein L20; Region: rpl20; CHL00068 985002004816 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 985002004817 23S rRNA binding site [nucleotide binding]; other site 985002004818 L21 binding site [polypeptide binding]; other site 985002004819 L13 binding site [polypeptide binding]; other site 985002004820 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 985002004821 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 985002004822 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 985002004823 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 985002004824 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 985002004825 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 985002004826 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 985002004827 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 985002004828 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 985002004829 active site 985002004830 dimer interface [polypeptide binding]; other site 985002004831 motif 1; other site 985002004832 motif 2; other site 985002004833 motif 3; other site 985002004834 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 985002004835 anticodon binding site; other site 985002004836 primosomal protein DnaI; Reviewed; Region: PRK08939 985002004837 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 985002004838 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 985002004839 Walker A motif; other site 985002004840 ATP binding site [chemical binding]; other site 985002004841 Walker B motif; other site 985002004842 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 985002004843 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 985002004844 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 985002004845 ATP cone domain; Region: ATP-cone; pfam03477 985002004846 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 985002004847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002004848 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 985002004849 DDE superfamily endonuclease; Region: DDE_4; cl15789 985002004850 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985002004851 DDE superfamily endonuclease; Region: DDE_4; cl15789 985002004852 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 985002004853 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 985002004854 CoA-binding site [chemical binding]; other site 985002004855 ATP-binding [chemical binding]; other site 985002004856 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 985002004857 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 985002004858 DNA binding site [nucleotide binding] 985002004859 catalytic residue [active] 985002004860 H2TH interface [polypeptide binding]; other site 985002004861 putative catalytic residues [active] 985002004862 turnover-facilitating residue; other site 985002004863 intercalation triad [nucleotide binding]; other site 985002004864 8OG recognition residue [nucleotide binding]; other site 985002004865 putative reading head residues; other site 985002004866 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 985002004867 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 985002004868 DNA polymerase I; Provisional; Region: PRK05755 985002004869 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 985002004870 active site 985002004871 metal binding site 1 [ion binding]; metal-binding site 985002004872 putative 5' ssDNA interaction site; other site 985002004873 metal binding site 3; metal-binding site 985002004874 metal binding site 2 [ion binding]; metal-binding site 985002004875 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 985002004876 putative DNA binding site [nucleotide binding]; other site 985002004877 putative metal binding site [ion binding]; other site 985002004878 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 985002004879 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 985002004880 active site 985002004881 DNA binding site [nucleotide binding] 985002004882 catalytic site [active] 985002004883 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 985002004884 Replication initiation factor; Region: Rep_trans; pfam02486 985002004885 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 985002004886 TcpE family; Region: TcpE; pfam12648 985002004887 AAA-like domain; Region: AAA_10; pfam12846 985002004888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002004889 ribonuclease E; Reviewed; Region: rne; PRK10811 985002004890 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 985002004891 Surface antigen [General function prediction only]; Region: COG3942 985002004892 NlpC/P60 family; Region: NLPC_P60; cl11438 985002004893 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 985002004894 Helix-turn-helix domains; Region: HTH; cl00088 985002004895 Integrase core domain; Region: rve; cl01316 985002004896 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 985002004897 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 985002004898 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 985002004899 dimer interface [polypeptide binding]; other site 985002004900 phosphorylation site [posttranslational modification] 985002004901 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 985002004902 ATP binding site [chemical binding]; other site 985002004903 Mg2+ binding site [ion binding]; other site 985002004904 G-X-G motif; other site 985002004905 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985002004906 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 985002004907 active site 985002004908 phosphorylation site [posttranslational modification] 985002004909 intermolecular recognition site; other site 985002004910 dimerization interface [polypeptide binding]; other site 985002004911 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 985002004912 DNA binding site [nucleotide binding] 985002004913 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 985002004914 isocitrate dehydrogenase; Validated; Region: PRK07362 985002004915 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 985002004916 dimer interface [polypeptide binding]; other site 985002004917 Citrate synthase; Region: Citrate_synt; pfam00285 985002004918 active site 985002004919 citrylCoA binding site [chemical binding]; other site 985002004920 oxalacetate/citrate binding site [chemical binding]; other site 985002004921 coenzyme A binding site [chemical binding]; other site 985002004922 catalytic triad [active] 985002004923 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 985002004924 pyruvate kinase; Provisional; Region: PRK06354 985002004925 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 985002004926 domain interfaces; other site 985002004927 active site 985002004928 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 985002004929 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 985002004930 active site 985002004931 ADP/pyrophosphate binding site [chemical binding]; other site 985002004932 dimerization interface [polypeptide binding]; other site 985002004933 allosteric effector site; other site 985002004934 fructose-1,6-bisphosphate binding site; other site 985002004935 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 985002004936 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 985002004937 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 985002004938 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 985002004939 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 985002004940 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985002004941 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 985002004942 putative NAD(P) binding site [chemical binding]; other site 985002004943 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 985002004944 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 985002004945 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 985002004946 generic binding surface I; other site 985002004947 generic binding surface II; other site 985002004948 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 985002004949 DHH family; Region: DHH; pfam01368 985002004950 DHHA1 domain; Region: DHHA1; pfam02272 985002004951 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 985002004952 Helix-turn-helix domains; Region: HTH; cl00088 985002004953 DNA-binding site [nucleotide binding]; DNA binding site 985002004954 DRTGG domain; Region: DRTGG; cl12147 985002004955 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 985002004956 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 985002004957 Ligand Binding Site [chemical binding]; other site 985002004958 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002004959 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 985002004960 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 985002004961 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 985002004962 active site 985002004963 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 985002004964 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 985002004965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002004966 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 985002004967 Ligand Binding Site [chemical binding]; other site 985002004968 acetate kinase; Region: ackA; TIGR00016 985002004969 Acetokinase family; Region: Acetate_kinase; cl01029 985002004970 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 985002004971 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; cl16911 985002004972 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 985002004973 dimer interface [polypeptide binding]; other site 985002004974 catalytic triad [active] 985002004975 peroxidatic and resolving cysteines [active] 985002004976 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 985002004977 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 985002004978 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 985002004979 THUMP domain; Region: THUMP; cl12076 985002004980 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 985002004981 Ligand Binding Site [chemical binding]; other site 985002004982 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 985002004983 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 985002004984 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985002004985 catalytic residue [active] 985002004986 septation ring formation regulator EzrA; Provisional; Region: PRK04778 985002004987 GAF domain; Region: GAF; cl15785 985002004988 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 985002004989 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 985002004990 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 985002004991 RNA binding surface [nucleotide binding]; other site 985002004992 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 985002004993 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 985002004994 active site 985002004995 catalytic site [active] 985002004996 OsmC-like protein; Region: OsmC; cl00767 985002004997 DDE superfamily endonuclease; Region: DDE_4; cl15789 985002004998 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 985002004999 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 985002005000 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985002005001 catalytic residue [active] 985002005002 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 985002005003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002005004 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 985002005005 putative L-serine binding site [chemical binding]; other site 985002005006 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 985002005007 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 985002005008 motif II; other site 985002005009 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 985002005010 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002005011 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 985002005012 active site turn [active] 985002005013 phosphorylation site [posttranslational modification] 985002005014 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 985002005015 putative acyl-acceptor binding pocket; other site 985002005016 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 985002005017 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 985002005018 protein binding site [polypeptide binding]; other site 985002005019 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 985002005020 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 985002005021 active site 985002005022 HIGH motif; other site 985002005023 dimer interface [polypeptide binding]; other site 985002005024 KMSKS motif; other site 985002005025 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 985002005026 RNA binding surface [nucleotide binding]; other site 985002005027 Transglycosylase; Region: Transgly; cl07896 985002005028 haptoglobin-binding heme uptake protein HarA; Region: IsdH_HarA; TIGR03658 985002005029 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002005030 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 985002005031 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 985002005032 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985002005033 heme-binding site [chemical binding]; other site 985002005034 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 985002005035 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 985002005036 Potassium binding sites [ion binding]; other site 985002005037 Cesium cation binding sites [ion binding]; other site 985002005038 acetyl-CoA synthetase; Provisional; Region: PRK04319 985002005039 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 985002005040 AMP-binding enzyme; Region: AMP-binding; cl15778 985002005041 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 985002005042 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 985002005043 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 985002005044 catabolite control protein A; Region: ccpA; TIGR01481 985002005045 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985002005046 DNA binding site [nucleotide binding] 985002005047 domain linker motif; other site 985002005048 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 985002005049 dimerization interface [polypeptide binding]; other site 985002005050 effector binding site; other site 985002005051 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 985002005052 Chorismate mutase type II; Region: CM_2; cl00693 985002005053 NeuB family; Region: NeuB; cl00496 985002005054 YtxH-like protein; Region: YtxH; cl02079 985002005055 translation initiation factor IF-2; Validated; Region: infB; PRK05306 985002005056 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 985002005057 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 985002005058 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 985002005059 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985002005060 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985002005061 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 985002005062 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002005063 HerA helicase [Replication, recombination, and repair]; Region: COG0433 985002005064 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 985002005065 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 985002005066 putative tRNA-binding site [nucleotide binding]; other site 985002005067 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 985002005068 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 985002005069 catalytic residues [active] 985002005070 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 985002005071 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 985002005072 oligomer interface [polypeptide binding]; other site 985002005073 active site 985002005074 metal binding site [ion binding]; metal-binding site 985002005075 Predicted small secreted protein [Function unknown]; Region: COG5584 985002005076 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002005077 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; cl16911 985002005078 Phosphotransferase enzyme family; Region: APH; pfam01636 985002005079 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 985002005080 active site 985002005081 substrate binding site [chemical binding]; other site 985002005082 ATP binding site [chemical binding]; other site 985002005083 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 985002005084 homodimer interface [polypeptide binding]; other site 985002005085 substrate-cofactor binding pocket; other site 985002005086 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002005087 catalytic residue [active] 985002005088 dipeptidase PepV; Reviewed; Region: PRK07318 985002005089 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 985002005090 active site 985002005091 metal binding site [ion binding]; metal-binding site 985002005092 Hsp70 protein; Region: HSP70; pfam00012 985002005093 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 985002005094 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 985002005095 RNA binding surface [nucleotide binding]; other site 985002005096 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 985002005097 active site 985002005098 uracil binding [chemical binding]; other site 985002005099 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 985002005100 MatE; Region: MatE; cl10513 985002005101 MatE; Region: MatE; cl10513 985002005102 HI0933-like protein; Region: HI0933_like; pfam03486 985002005103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002005104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002005105 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002005106 SasC/Mrp/FmtB intercellular aggregation domain; Region: SasC_Mrp_aggreg; TIGR04263 985002005107 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005108 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005109 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005110 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005111 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005112 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005113 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005114 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005115 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005116 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005117 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005118 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005119 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005120 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005121 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005122 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002005123 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 985002005124 active site residue [active] 985002005125 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 985002005126 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 985002005127 HIGH motif; other site 985002005128 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 985002005129 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 985002005130 active site 985002005131 KMSKS motif; other site 985002005132 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 985002005133 tRNA binding surface [nucleotide binding]; other site 985002005134 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 985002005135 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985002005136 putative substrate translocation pore; other site 985002005137 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 985002005138 Methyltransferase domain; Region: Methyltransf_31; pfam13847 985002005139 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; cl16911 985002005140 Helix-turn-helix domains; Region: HTH; cl00088 985002005141 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 985002005142 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; cl12031 985002005143 Proline dehydrogenase; Region: Pro_dh; cl03282 985002005144 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 985002005145 homopentamer interface [polypeptide binding]; other site 985002005146 active site 985002005147 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 985002005148 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 985002005149 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 985002005150 dimerization interface [polypeptide binding]; other site 985002005151 active site 985002005152 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 985002005153 Lumazine binding domain; Region: Lum_binding; pfam00677 985002005154 Lumazine binding domain; Region: Lum_binding; pfam00677 985002005155 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 985002005156 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 985002005157 catalytic motif [active] 985002005158 Zn binding site [ion binding]; other site 985002005159 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; cl00161 985002005160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 985002005161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002005162 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 985002005163 dimerization interface [polypeptide binding]; other site 985002005164 putative DNA binding site [nucleotide binding]; other site 985002005165 putative Zn2+ binding site [ion binding]; other site 985002005166 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 985002005167 arsenical pump membrane protein; Provisional; Region: PRK15445 985002005168 transmembrane helices; other site 985002005169 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 985002005170 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 985002005171 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 985002005172 Helix-turn-helix domains; Region: HTH; cl00088 985002005173 DNA binding residues [nucleotide binding] 985002005174 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 985002005175 anion exchange protein; Region: ae; TIGR00834 985002005176 CAAX protease self-immunity; Region: Abi; cl00558 985002005177 CAAX protease self-immunity; Region: Abi; cl00558 985002005178 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 985002005179 active site 985002005180 intersubunit interactions; other site 985002005181 catalytic residue [active] 985002005182 CrcB-like protein; Region: CRCB; cl09114 985002005183 CrcB-like protein; Region: CRCB; cl09114 985002005184 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 985002005185 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985002005186 active site 985002005187 catalytic tetrad [active] 985002005188 S-adenosylmethionine synthetase; Validated; Region: PRK05250 985002005189 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 985002005190 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 985002005191 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 985002005192 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 985002005193 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 985002005194 active site 985002005195 substrate-binding site [chemical binding]; other site 985002005196 metal-binding site [ion binding] 985002005197 ATP binding site [chemical binding]; other site 985002005198 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 985002005199 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; cl12031 985002005200 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 985002005201 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 985002005202 nudix motif; other site 985002005203 Haemolytic domain; Region: Haemolytic; cl00506 985002005204 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; cl09108 985002005205 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 985002005206 metal binding site [ion binding]; metal-binding site 985002005207 substrate binding pocket [chemical binding]; other site 985002005208 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 985002005209 AMP-binding enzyme; Region: AMP-binding; cl15778 985002005210 Excalibur calcium-binding domain; Region: Excalibur; cl05460 985002005211 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 985002005212 Protein of unknown function (DUF3969); Region: DUF3969; pfam13108 985002005213 Domain of unknown function (DUF955); Region: DUF955; cl01076 985002005214 genomic island niSa-beta 985002005215 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 985002005216 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 985002005217 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 becoming...; Region: Lipase; cl14883 985002005218 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 985002005219 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 985002005220 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 985002005221 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 985002005222 HsdM N-terminal domain; Region: HsdM_N; pfam12161 985002005223 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; cl16911 985002005224 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 985002005225 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 985002005226 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 985002005227 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 985002005228 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 985002005229 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 985002005230 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 985002005231 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 985002005232 active site 985002005233 Int/Topo IB signature motif; other site 985002005234 DNA binding site [nucleotide binding] 985002005235 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 985002005236 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002005237 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 985002005238 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002005239 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 985002005240 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002005241 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 985002005242 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002005243 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 985002005244 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002005245 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 985002005246 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 985002005247 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; cl12031 985002005248 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 985002005249 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 985002005250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002005251 ferrochelatase; Provisional; Region: PRK12435 985002005252 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 985002005253 C-terminal domain interface [polypeptide binding]; other site 985002005254 active site 985002005255 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 985002005256 active site 985002005257 N-terminal domain interface [polypeptide binding]; other site 985002005258 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 985002005259 substrate binding site [chemical binding]; other site 985002005260 active site 985002005261 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 985002005262 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 985002005263 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 985002005264 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 985002005265 Walker A/P-loop; other site 985002005266 ATP binding site [chemical binding]; other site 985002005267 Q-loop/lid; other site 985002005268 ABC transporter signature motif; other site 985002005269 Walker B; other site 985002005270 D-loop; other site 985002005271 H-loop/switch region; other site 985002005272 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 985002005273 HIT family signature motif; other site 985002005274 catalytic residue [active] 985002005275 YtxH-like protein; Region: YtxH; cl02079 985002005276 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 985002005277 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 985002005278 SurA N-terminal domain; Region: SurA_N_3; cl07813 985002005279 PPIC-type PPIASE domain; Region: Rotamase; cl08278 985002005280 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 985002005281 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 inactive in...; Region: YhaM_OBF_like; cd04492 985002005282 generic binding surface II; other site 985002005283 generic binding surface I; other site 985002005284 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985002005285 Zn2+ binding site [ion binding]; other site 985002005286 Mg2+ binding site [ion binding]; other site 985002005287 Uncharacterized conserved protein [Function unknown]; Region: COG4717 985002005288 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002005289 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 985002005290 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 985002005291 active site 985002005292 metal binding site [ion binding]; metal-binding site 985002005293 DNA binding site [nucleotide binding] 985002005294 Protein of unknown function (DUF964); Region: DUF964; cl01483 985002005295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 985002005296 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 985002005297 non-specific DNA binding site [nucleotide binding]; other site 985002005298 salt bridge; other site 985002005299 sequence-specific DNA binding site [nucleotide binding]; other site 985002005300 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985002005301 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 985002005302 active site 985002005303 phosphorylation site [posttranslational modification] 985002005304 intermolecular recognition site; other site 985002005305 dimerization interface [polypeptide binding]; other site 985002005306 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 985002005307 DNA binding residues [nucleotide binding] 985002005308 dimerization interface [polypeptide binding]; other site 985002005309 GAF domain; Region: GAF_2; pfam13185 985002005310 GAF domain; Region: GAF; cl15785 985002005311 Histidine kinase; Region: HisKA_3; pfam07730 985002005312 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 985002005313 ATP binding site [chemical binding]; other site 985002005314 Mg2+ binding site [ion binding]; other site 985002005315 G-X-G motif; other site 985002005316 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 985002005317 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 985002005318 active site 985002005319 fumarate hydratase; Reviewed; Region: fumC; PRK00485 985002005320 Class II fumarases; Region: Fumarase_classII; cd01362 985002005321 active site 985002005322 tetramer interface [polypeptide binding]; other site 985002005323 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 985002005324 active site 985002005325 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 985002005326 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 985002005327 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 985002005328 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985002005329 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 985002005330 Walker A/P-loop; other site 985002005331 ATP binding site [chemical binding]; other site 985002005332 Q-loop/lid; other site 985002005333 ABC transporter signature motif; other site 985002005334 Walker B; other site 985002005335 D-loop; other site 985002005336 H-loop/switch region; other site 985002005337 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 985002005338 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985002005339 substrate binding pocket [chemical binding]; other site 985002005340 membrane-bound complex binding site; other site 985002005341 hinge residues; other site 985002005342 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 985002005343 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 985002005344 dimer interface [polypeptide binding]; other site 985002005345 conserved gate region; other site 985002005346 putative PBP binding loops; other site 985002005347 ABC-ATPase subunit interface; other site 985002005348 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002005349 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 985002005350 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 985002005351 metal binding site 2 [ion binding]; metal-binding site 985002005352 putative DNA binding helix; other site 985002005353 metal binding site 1 [ion binding]; metal-binding site 985002005354 dimer interface [polypeptide binding]; other site 985002005355 structural Zn2+ binding site [ion binding]; other site 985002005356 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 985002005357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002005358 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 985002005359 catalytic triad [active] 985002005360 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 985002005361 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 985002005362 inhibitor-cofactor binding pocket; inhibition site 985002005363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002005364 catalytic residue [active] 985002005365 Predicted membrane protein [Function unknown]; Region: COG4129 985002005366 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 985002005367 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985002005368 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 985002005369 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 985002005370 Walker A/P-loop; other site 985002005371 ATP binding site [chemical binding]; other site 985002005372 Q-loop/lid; other site 985002005373 ABC transporter signature motif; other site 985002005374 Walker B; other site 985002005375 D-loop; other site 985002005376 H-loop/switch region; other site 985002005377 Protein of unknown function (DUF402); Region: DUF402; cl00979 985002005378 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 985002005379 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 985002005380 minor groove reading motif; other site 985002005381 helix-hairpin-helix signature motif; other site 985002005382 substrate binding pocket [chemical binding]; other site 985002005383 active site 985002005384 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 985002005385 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 985002005386 DNA binding and oxoG recognition site [nucleotide binding] 985002005387 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 985002005388 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 985002005389 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002005390 Walker A/P-loop; other site 985002005391 ATP binding site [chemical binding]; other site 985002005392 Q-loop/lid; other site 985002005393 ABC transporter signature motif; other site 985002005394 Walker B; other site 985002005395 D-loop; other site 985002005396 H-loop/switch region; other site 985002005397 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 985002005398 RecX family; Region: RecX; cl00936 985002005399 Transglycosylase; Region: Transgly; cl07896 985002005400 intracellular protease, PfpI family; Region: PfpI; TIGR01382 985002005401 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 985002005402 proposed catalytic triad [active] 985002005403 conserved cys residue [active] 985002005404 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 985002005405 FeS/SAM binding site; other site 985002005406 YfkB-like domain; Region: YfkB; pfam08756 985002005407 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 985002005408 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 985002005409 Protein of unknown function (DUF1128); Region: DUF1128; cl11553 985002005410 Low molecular weight phosphatase family; Region: LMWPc; cd00115 985002005411 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 985002005412 active site 985002005413 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 985002005414 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985002005415 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 985002005416 active site 985002005417 phosphorylation site [posttranslational modification] 985002005418 intermolecular recognition site; other site 985002005419 dimerization interface [polypeptide binding]; other site 985002005420 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 985002005421 DNA binding residues [nucleotide binding] 985002005422 dimerization interface [polypeptide binding]; other site 985002005423 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985002005424 Histidine kinase; Region: HisKA_3; pfam07730 985002005425 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 985002005426 ATP binding site [chemical binding]; other site 985002005427 Mg2+ binding site [ion binding]; other site 985002005428 G-X-G motif; other site 985002005429 Predicted membrane protein [Function unknown]; Region: COG4758 985002005430 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 985002005431 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 985002005432 active site 985002005433 Predicted membrane protein [Function unknown]; Region: COG4129 985002005434 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 985002005435 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 985002005436 catalytic triad [active] 985002005437 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 985002005438 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985002005439 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 985002005440 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 985002005441 Ferritin-like domain; Region: Ferritin; pfam00210 985002005442 ferroxidase diiron center [ion binding]; other site 985002005443 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; cl12031 985002005444 catalytic triad [active] 985002005445 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 985002005446 active site 985002005447 catalytic site [active] 985002005448 substrate binding site [chemical binding]; other site 985002005449 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 985002005450 active site 985002005451 DNA polymerase IV; Validated; Region: PRK02406 985002005452 DNA binding site [nucleotide binding] 985002005453 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 985002005454 TRAM domain; Region: TRAM; cl01282 985002005455 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 985002005456 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 985002005457 S-adenosylmethionine binding site [chemical binding]; other site 985002005458 putative lipid kinase; Reviewed; Region: PRK13337 985002005459 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 985002005460 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 985002005461 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 985002005462 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 985002005463 GatB domain; Region: GatB_Yqey; cl11497 985002005464 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 985002005465 Amidase; Region: Amidase; cl11426 985002005466 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 985002005467 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 985002005468 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 985002005469 Na binding site [ion binding]; other site 985002005470 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 985002005471 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 985002005472 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 985002005473 nucleotide binding pocket [chemical binding]; other site 985002005474 K-X-D-G motif; other site 985002005475 catalytic site [active] 985002005476 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 985002005477 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 985002005478 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 985002005479 Dimer interface [polypeptide binding]; other site 985002005480 BRCT sequence motif; other site 985002005481 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 985002005482 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002005483 Family description; Region: UvrD_C_2; cl15862 985002005484 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 985002005485 substrate binding site [chemical binding]; other site 985002005486 putative active site [active] 985002005487 dimer interface [polypeptide binding]; other site 985002005488 Helix-turn-helix domains; Region: HTH; cl00088 985002005489 adenylosuccinate lyase; Provisional; Region: PRK07492 985002005490 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 985002005491 tetramer interface [polypeptide binding]; other site 985002005492 active site 985002005493 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 985002005494 NETI protein; Region: NETI; pfam14044 985002005495 hypothetical protein; Provisional; Region: PRK04164 985002005496 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 985002005497 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 985002005498 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 985002005499 homodimer interface [polypeptide binding]; other site 985002005500 NAD binding pocket [chemical binding]; other site 985002005501 ATP binding pocket [chemical binding]; other site 985002005502 Mg binding site [ion binding]; other site 985002005503 active-site loop [active] 985002005504 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 985002005505 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 985002005506 active site 985002005507 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 985002005508 active site 985002005509 dimer interface [polypeptide binding]; other site 985002005510 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 985002005511 Prephenate dehydratase; Region: PDT; pfam00800 985002005512 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 985002005513 putative L-Phe binding site [chemical binding]; other site 985002005514 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 985002005515 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 985002005516 transmembrane helices; other site 985002005517 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 985002005518 Isochorismatase family; Region: Isochorismatase; pfam00857 985002005519 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 985002005520 catalytic triad [active] 985002005521 conserved cis-peptide bond; other site 985002005522 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 985002005523 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 985002005524 DHHA2 domain; Region: DHHA2; pfam02833 985002005525 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 985002005526 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 985002005527 NAD(P) binding site [chemical binding]; other site 985002005528 catalytic residues [active] 985002005529 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 985002005530 YolD-like protein; Region: YolD; pfam08863 985002005531 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 985002005532 active site 985002005533 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 985002005534 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 985002005535 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 985002005536 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985002005537 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 985002005538 Walker A/P-loop; other site 985002005539 ATP binding site [chemical binding]; other site 985002005540 Q-loop/lid; other site 985002005541 ABC transporter signature motif; other site 985002005542 Walker B; other site 985002005543 D-loop; other site 985002005544 H-loop/switch region; other site 985002005545 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 985002005546 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985002005547 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 985002005548 Walker A/P-loop; other site 985002005549 ATP binding site [chemical binding]; other site 985002005550 Q-loop/lid; other site 985002005551 ABC transporter signature motif; other site 985002005552 Walker B; other site 985002005553 D-loop; other site 985002005554 H-loop/switch region; other site 985002005555 Predicted transcriptional regulators [Transcription]; Region: COG1725 985002005556 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985002005557 DNA-binding site [nucleotide binding]; DNA binding site 985002005558 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 985002005559 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 985002005560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002005561 homodimer interface [polypeptide binding]; other site 985002005562 catalytic residue [active] 985002005563 MAP domain; Region: MAP; pfam03642 985002005564 MAP domain; Region: MAP; pfam03642 985002005565 MAP domain; Region: MAP; pfam03642 985002005566 MAP domain; Region: MAP; pfam03642 985002005567 Prophage 985002005568 Bacterial SH3 domain; Region: SH3_3; cl02551 985002005569 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 985002005570 NlpC/P60 family; Region: NLPC_P60; cl11438 985002005571 Bacteriophage holin; Region: Phage_holin_1; cl02344 985002005572 Protein of unknown function (DUF2951); Region: DUF2951; pfam11166 985002005573 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 985002005574 rad50; Region: rad50; TIGR00606 985002005575 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 985002005576 Phage tail protein; Region: Sipho_tail; pfam05709 985002005577 Phage tail protein; Region: Sipho_tail; pfam05709 985002005578 Phage-related minor tail protein [Function unknown]; Region: COG5280 985002005579 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 985002005580 Phage-related protein [Function unknown]; Region: COG5412 985002005581 membrane protein P6; Region: PHA01399 985002005582 Peptidase family M23; Region: Peptidase_M23; pfam01551 985002005583 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 catalyze...; Region: LT_GEWL; cd00254 985002005584 N-acetyl-D-glucosamine binding site [chemical binding]; other site 985002005585 catalytic residue [active] 985002005586 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 985002005587 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 985002005588 SacI homology domain; Region: Syja_N; pfam02383 985002005589 Phage capsid family; Region: Phage_capsid; pfam05065 985002005590 Clp protease; Region: CLP_protease; pfam00574 985002005591 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 985002005592 oligomer interface [polypeptide binding]; other site 985002005593 active site residues [active] 985002005594 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 985002005595 Phage-related protein [Function unknown]; Region: COG4695; cl01923 985002005596 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 985002005597 Phage Terminase; Region: Terminase_1; pfam03354 985002005598 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 985002005599 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 985002005600 Protein of unknown function (DUF1514); Region: DUF1514; pfam07438 985002005601 Transcriptional activator RinB; Region: RinB; pfam06116 985002005602 Protein of unknown function (DUF1381); Region: DUF1381; pfam07129 985002005603 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 985002005604 trimer interface [polypeptide binding]; other site 985002005605 active site 985002005606 Protein of unknown function (DUF1024); Region: DUF1024; pfam06260 985002005607 YopX protein; Region: YopX; cl09859 985002005608 Phage Conserved Open Reading Frame 51; Region: Phage_Orf51; pfam06194 985002005609 PVL ORF-50-like family; Region: PVL_ORF50; pfam07768 985002005610 Endodeoxyribonuclease RusA; Region: RusA; cl01885 985002005611 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 985002005612 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 985002005613 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 985002005614 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 985002005615 dimer interface [polypeptide binding]; other site 985002005616 ssDNA binding site [nucleotide binding]; other site 985002005617 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985002005618 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002005619 RecT family; Region: RecT; cl04285 985002005620 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 985002005621 Protein of unknown function (DUF1108); Region: DUF1108; pfam06531 985002005622 Hypothetical protein of unknown function (DUF2482); Region: DUF2482; pfam10655 985002005623 Protein of unknown function (DUF1270); Region: DUF1270; pfam06900 985002005624 Domain of unknown function (DUF771); Region: DUF771; cl09962 985002005625 AntA/AntB antirepressor; Region: AntA; cl01430 985002005626 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 985002005627 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 985002005628 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 985002005629 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 985002005630 Catalytic site [active] 985002005631 PemK-like protein; Region: PemK; cl00995 985002005632 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 985002005633 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 985002005634 Int/Topo IB signature motif; other site 985002005635 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 985002005636 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 985002005637 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 985002005638 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 985002005639 metal binding site [ion binding]; metal-binding site 985002005640 dimer interface [polypeptide binding]; other site 985002005641 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 985002005642 Cation transport protein; Region: TrkH; cl10514 985002005643 Cation transport protein; Region: TrkH; cl10514 985002005644 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 985002005645 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 985002005646 ring oligomerisation interface [polypeptide binding]; other site 985002005647 ATP/Mg binding site [chemical binding]; other site 985002005648 stacking interactions; other site 985002005649 hinge regions; other site 985002005650 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 985002005651 oligomerisation interface [polypeptide binding]; other site 985002005652 mobile loop; other site 985002005653 roof hairpin; other site 985002005654 CAAX protease self-immunity; Region: Abi; cl00558 985002005655 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 985002005656 dimer interface [polypeptide binding]; other site 985002005657 FMN binding site [chemical binding]; other site 985002005658 Predicted amidohydrolase [General function prediction only]; Region: COG0388 985002005659 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 985002005660 putative active site [active] 985002005661 catalytic triad [active] 985002005662 putative dimer interface [polypeptide binding]; other site 985002005663 delta-hemolysin; Provisional; Region: PRK14752 985002005664 Accessory gene regulator B; Region: AgrB; cl01873 985002005665 Staphylococcal AgrD protein; Region: AgrD; cl05477 985002005666 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985002005667 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 985002005668 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 985002005669 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 985002005670 active site 985002005671 phosphorylation site [posttranslational modification] 985002005672 intermolecular recognition site; other site 985002005673 dimerization interface [polypeptide binding]; other site 985002005674 LytTr DNA-binding domain; Region: LytTR; cl04498 985002005675 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 985002005676 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 985002005677 putative substrate binding site [chemical binding]; other site 985002005678 putative ATP binding site [chemical binding]; other site 985002005679 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 985002005680 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 985002005681 substrate binding [chemical binding]; other site 985002005682 active site 985002005683 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 985002005684 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985002005685 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985002005686 DNA binding site [nucleotide binding] 985002005687 domain linker motif; other site 985002005688 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 985002005689 dimerization interface [polypeptide binding]; other site 985002005690 ligand binding site [chemical binding]; other site 985002005691 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 985002005692 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 985002005693 CPxP motif; other site 985002005694 putative inner membrane protein; Provisional; Region: PRK11099 985002005695 Sulphur transport; Region: Sulf_transp; cl01018 985002005696 Sulphur transport; Region: Sulf_transp; cl01018 985002005697 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 985002005698 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 985002005699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002005700 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 985002005701 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 985002005702 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 985002005703 ABC transporter; Region: ABC_tran_2; pfam12848 985002005704 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 985002005705 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 985002005706 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002005707 Walker A/P-loop; other site 985002005708 ATP binding site [chemical binding]; other site 985002005709 Q-loop/lid; other site 985002005710 ABC transporter signature motif; other site 985002005711 Walker B; other site 985002005712 D-loop; other site 985002005713 H-loop/switch region; other site 985002005714 UGMP family protein; Validated; Region: PRK09604 985002005715 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 985002005716 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 985002005717 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002005718 Coenzyme A binding pocket [chemical binding]; other site 985002005719 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 985002005720 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 985002005721 Dehydratase family; Region: ILVD_EDD; cl00340 985002005722 6-phosphogluconate dehydratase; Region: edd; TIGR01196 985002005723 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 985002005724 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 985002005725 PYR/PP interface [polypeptide binding]; other site 985002005726 dimer interface [polypeptide binding]; other site 985002005727 TPP binding site [chemical binding]; other site 985002005728 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 985002005729 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 985002005730 TPP-binding site [chemical binding]; other site 985002005731 dimer interface [polypeptide binding]; other site 985002005732 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 985002005733 ketol-acid reductoisomerase; Provisional; Region: PRK05479 985002005734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002005735 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 985002005736 2-isopropylmalate synthase; Validated; Region: PRK00915 985002005737 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 985002005738 active site 985002005739 catalytic residues [active] 985002005740 metal binding site [ion binding]; metal-binding site 985002005741 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 985002005742 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 985002005743 tartrate dehydrogenase; Provisional; Region: PRK08194 985002005744 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 985002005745 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 985002005746 substrate binding site [chemical binding]; other site 985002005747 ligand binding site [chemical binding]; other site 985002005748 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 985002005749 substrate binding site [chemical binding]; other site 985002005750 threonine dehydratase; Validated; Region: PRK08639 985002005751 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 985002005752 tetramer interface [polypeptide binding]; other site 985002005753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002005754 catalytic residue [active] 985002005755 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 985002005756 putative Ile/Val binding site [chemical binding]; other site 985002005757 hypothetical protein; Provisional; Region: PRK04351 985002005758 SprT homologues; Region: SprT; cl01182 985002005759 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 985002005760 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 985002005761 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 985002005762 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 985002005763 RNA binding site [nucleotide binding]; other site 985002005764 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 985002005765 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985002005766 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 985002005767 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 985002005768 DNA binding residues [nucleotide binding] 985002005769 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 985002005770 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 985002005771 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 985002005772 anti sigma factor interaction site; other site 985002005773 regulatory phosphorylation site [posttranslational modification]; other site 985002005774 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 985002005775 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 985002005776 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 985002005777 PemK-like protein; Region: PemK; cl00995 985002005778 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 985002005779 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 985002005780 active site 985002005781 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985002005782 dimer interface [polypeptide binding]; other site 985002005783 substrate binding site [chemical binding]; other site 985002005784 catalytic residues [active] 985002005785 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 985002005786 Bacterial PH domain; Region: DUF304; cl01348 985002005787 Predicted membrane protein [Function unknown]; Region: COG3428 985002005788 Bacterial PH domain; Region: DUF304; cl01348 985002005789 Bacterial PH domain; Region: DUF304; cl01348 985002005790 Bacterial PH domain; Region: DUF304; cl01348 985002005791 K+-transporting ATPase, c chain; Region: KdpC; cl00944 985002005792 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 985002005793 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 985002005794 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 985002005795 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 985002005796 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 985002005797 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 985002005798 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 985002005799 Ligand Binding Site [chemical binding]; other site 985002005800 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 985002005801 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 985002005802 dimer interface [polypeptide binding]; other site 985002005803 phosphorylation site [posttranslational modification] 985002005804 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 985002005805 ATP binding site [chemical binding]; other site 985002005806 Mg2+ binding site [ion binding]; other site 985002005807 G-X-G motif; other site 985002005808 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985002005809 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 985002005810 active site 985002005811 phosphorylation site [posttranslational modification] 985002005812 intermolecular recognition site; other site 985002005813 dimerization interface [polypeptide binding]; other site 985002005814 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 985002005815 DNA binding site [nucleotide binding] 985002005816 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 985002005817 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 985002005818 ATP binding site [chemical binding]; other site 985002005819 Mg++ binding site [ion binding]; other site 985002005820 motif III; other site 985002005821 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 985002005822 nucleotide binding region [chemical binding]; other site 985002005823 ATP-binding site [chemical binding]; other site 985002005824 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 985002005825 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 985002005826 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985002005827 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985002005828 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 985002005829 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 985002005830 ATP-grasp domain; Region: ATP-grasp_4; cl03087 985002005831 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 985002005832 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 985002005833 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 985002005834 putative homodimer interface [polypeptide binding]; other site 985002005835 putative homotetramer interface [polypeptide binding]; other site 985002005836 allosteric switch controlling residues; other site 985002005837 putative metal binding site [ion binding]; other site 985002005838 putative homodimer-homodimer interface [polypeptide binding]; other site 985002005839 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 985002005840 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 985002005841 putative active site [active] 985002005842 catalytic site [active] 985002005843 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 985002005844 putative active site [active] 985002005845 catalytic site [active] 985002005846 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 985002005847 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 985002005848 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 985002005849 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 985002005850 thiamine phosphate binding site [chemical binding]; other site 985002005851 active site 985002005852 pyrophosphate binding site [ion binding]; other site 985002005853 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 985002005854 substrate binding site [chemical binding]; other site 985002005855 multimerization interface [polypeptide binding]; other site 985002005856 ATP binding site [chemical binding]; other site 985002005857 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 985002005858 dimer interface [polypeptide binding]; other site 985002005859 substrate binding site [chemical binding]; other site 985002005860 ATP binding site [chemical binding]; other site 985002005861 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 985002005862 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 985002005863 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 985002005864 dimer interface [polypeptide binding]; other site 985002005865 ssDNA binding site [nucleotide binding]; other site 985002005866 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985002005867 YwpF-like protein; Region: YwpF; pfam14183 985002005868 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 985002005869 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 985002005870 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 985002005871 hinge; other site 985002005872 active site 985002005873 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 985002005874 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK14735 985002005875 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 985002005876 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 985002005877 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 985002005878 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 985002005879 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 985002005880 alpha subunit interaction interface [polypeptide binding]; other site 985002005881 Walker A motif; other site 985002005882 ATP binding site [chemical binding]; other site 985002005883 Walker B motif; other site 985002005884 inhibitor binding site; inhibition site 985002005885 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 985002005886 ATP synthase; Region: ATP-synt; cl00365 985002005887 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 985002005888 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 985002005889 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 985002005890 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 985002005891 beta subunit interaction interface [polypeptide binding]; other site 985002005892 Walker A motif; other site 985002005893 ATP binding site [chemical binding]; other site 985002005894 Walker B motif; other site 985002005895 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 985002005896 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 985002005897 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 985002005898 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 985002005899 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 985002005900 ATP synthase subunit C; Region: ATP-synt_C; cl00466 985002005901 ATP synthase A chain; Region: ATP-synt_A; cl00413 985002005902 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 985002005903 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 985002005904 active site 985002005905 homodimer interface [polypeptide binding]; other site 985002005906 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985002005907 active site 985002005908 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 985002005909 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 985002005910 dimer interface [polypeptide binding]; other site 985002005911 active site 985002005912 glycine-pyridoxal phosphate binding site [chemical binding]; other site 985002005913 folate binding site [chemical binding]; other site 985002005914 Protein of unknown function (DUF436); Region: DUF436; cl01860 985002005915 Low molecular weight phosphatase family; Region: LMWPc; cd00115 985002005916 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 985002005917 active site 985002005918 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 985002005919 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 985002005920 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 985002005921 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 985002005922 S-adenosylmethionine binding site [chemical binding]; other site 985002005923 peptide chain release factor 1; Validated; Region: prfA; PRK00591 985002005924 RF-1 domain; Region: RF-1; cl02875 985002005925 RF-1 domain; Region: RF-1; cl02875 985002005926 thymidine kinase; Provisional; Region: PRK04296 985002005927 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 985002005928 transcription termination factor Rho; Provisional; Region: rho; PRK09376 985002005929 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 985002005930 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 985002005931 RNA binding site [nucleotide binding]; other site 985002005932 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 985002005933 multimer interface [polypeptide binding]; other site 985002005934 Walker A motif; other site 985002005935 ATP binding site [chemical binding]; other site 985002005936 Walker B motif; other site 985002005937 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 985002005938 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 985002005939 NAD binding site [chemical binding]; other site 985002005940 catalytic residues [active] 985002005941 Helix-turn-helix domains; Region: HTH; cl00088 985002005942 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 985002005943 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 985002005944 hinge; other site 985002005945 active site 985002005946 hypothetical protein; Provisional; Region: PRK08185 985002005947 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 985002005948 intersubunit interface [polypeptide binding]; other site 985002005949 active site 985002005950 zinc binding site [ion binding]; other site 985002005951 Na+ binding site [ion binding]; other site 985002005952 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 985002005953 CTP synthetase; Validated; Region: pyrG; PRK05380 985002005954 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 985002005955 Catalytic site [active] 985002005956 active site 985002005957 UTP binding site [chemical binding]; other site 985002005958 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 985002005959 active site 985002005960 putative oxyanion hole; other site 985002005961 catalytic triad [active] 985002005962 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 985002005963 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002005964 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002005965 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 985002005966 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 985002005967 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 985002005968 ATP-grasp domain; Region: ATP-grasp_4; cl03087 985002005969 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985002005970 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 985002005971 metal binding site [ion binding]; metal-binding site 985002005972 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 985002005973 Predicted membrane protein [Function unknown]; Region: COG4270 985002005974 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 985002005975 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 985002005976 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 985002005977 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 985002005978 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 985002005979 intersubunit interface [polypeptide binding]; other site 985002005980 active site 985002005981 catalytic residue [active] 985002005982 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 985002005983 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 985002005984 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 985002005985 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 985002005986 dimerization interface [polypeptide binding]; other site 985002005987 DPS ferroxidase diiron center [ion binding]; other site 985002005988 ion pore; other site 985002005989 Protein of unknown function, DUF393; Region: DUF393; cl01136 985002005990 EVE domain; Region: EVE; cl00728 985002005991 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 985002005992 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 985002005993 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 985002005994 NADH(P)-binding; Region: NAD_binding_10; pfam13460 985002005995 NAD(P) binding site [chemical binding]; other site 985002005996 putative active site [active] 985002005997 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 985002005998 dimerization interface [polypeptide binding]; other site 985002005999 putative DNA binding site [nucleotide binding]; other site 985002006000 putative Zn2+ binding site [ion binding]; other site 985002006001 Cation efflux family; Region: Cation_efflux; cl00316 985002006002 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 985002006003 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 985002006004 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985002006005 active site 985002006006 motif I; other site 985002006007 motif II; other site 985002006008 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 985002006009 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 985002006010 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002006011 Walker A/P-loop; other site 985002006012 ATP binding site [chemical binding]; other site 985002006013 Q-loop/lid; other site 985002006014 ABC transporter signature motif; other site 985002006015 Walker B; other site 985002006016 D-loop; other site 985002006017 H-loop/switch region; other site 985002006018 TIR domain; Region: TIR_2; cl15770 985002006019 TIR domain; Region: TIR_2; cl15770 985002006020 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 985002006021 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 985002006022 Helix-turn-helix domains; Region: HTH; cl00088 985002006023 AAA domain; Region: AAA_22; pfam13401 985002006024 Transposase; Region: DDE_Tnp_ISL3; pfam01610 985002006025 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 985002006026 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 985002006027 glutaminase active site [active] 985002006028 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 985002006029 dimer interface [polypeptide binding]; other site 985002006030 active site 985002006031 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 985002006032 dimer interface [polypeptide binding]; other site 985002006033 active site 985002006034 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 985002006035 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002006036 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 985002006037 active site 985002006038 P-loop; other site 985002006039 phosphorylation site [posttranslational modification] 985002006040 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985002006041 Helix-turn-helix domains; Region: HTH; cl00088 985002006042 Helix-turn-helix domains; Region: HTH; cl00088 985002006043 PRD domain; Region: PRD; cl15445 985002006044 PRD domain; Region: PRD; cl15445 985002006045 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 985002006046 active site 985002006047 P-loop; other site 985002006048 phosphorylation site [posttranslational modification] 985002006049 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 985002006050 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 985002006051 active site 985002006052 phosphorylation site [posttranslational modification] 985002006053 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 985002006054 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 985002006055 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 985002006056 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002006057 SasC/Mrp/FmtB intercellular aggregation domain; Region: SasC_Mrp_aggreg; TIGR04263 985002006058 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006059 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006060 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006061 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006062 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006063 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006064 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006065 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006066 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006067 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006068 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006069 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 985002006070 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 985002006071 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 985002006072 active site 985002006073 substrate binding site [chemical binding]; other site 985002006074 metal binding site [ion binding]; metal-binding site 985002006075 YbbR-like protein; Region: YbbR; pfam07949 985002006076 YbbR-like protein; Region: YbbR; pfam07949 985002006077 TIGR00159 family protein; Region: TIGR00159 985002006078 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 985002006079 Arginase family; Region: Arginase; cl00306 985002006080 RecA-family ATPase [DNA replication, recombination, and repair]; Region: RepA; COG3598 985002006081 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 985002006082 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 985002006083 Walker A motif; other site 985002006084 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 985002006085 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985002006086 putative substrate translocation pore; other site 985002006087 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985002006088 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 985002006089 Haemolysin-III related; Region: HlyIII; cl03831 985002006090 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 985002006091 substrate binding site; other site 985002006092 dimerization interface; other site 985002006093 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 985002006094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 985002006095 Nucleoside recognition; Region: Gate; cl00486 985002006096 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 985002006097 ABC-ATPase subunit interface; other site 985002006098 dimer interface [polypeptide binding]; other site 985002006099 putative PBP binding regions; other site 985002006100 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 985002006101 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 985002006102 ABC-ATPase subunit interface; other site 985002006103 dimer interface [polypeptide binding]; other site 985002006104 putative PBP binding regions; other site 985002006105 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 985002006106 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 985002006107 siderophore binding site; other site 985002006108 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 985002006109 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 985002006110 dimer interface [polypeptide binding]; other site 985002006111 active site 985002006112 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985002006113 substrate binding site [chemical binding]; other site 985002006114 catalytic residue [active] 985002006115 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985002006116 IucA / IucC family; Region: IucA_IucC; pfam04183 985002006117 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985002006118 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 985002006119 putative substrate translocation pore; other site 985002006120 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985002006121 IucA / IucC family; Region: IucA_IucC; pfam04183 985002006122 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985002006123 Asp23 family; Region: Asp23; cl00574 985002006124 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 985002006125 BCCT family transporter; Region: BCCT; cl00569 985002006126 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 985002006127 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 985002006128 putative NAD(P) binding site [chemical binding]; other site 985002006129 dimer interface [polypeptide binding]; other site 985002006130 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 985002006131 Prostaglandin dehydrogenases; Region: PGDH; cd05288 985002006132 NAD(P) binding site [chemical binding]; other site 985002006133 substrate binding site [chemical binding]; other site 985002006134 dimer interface [polypeptide binding]; other site 985002006135 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; cl12031 985002006136 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985002006137 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002006138 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 985002006139 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 985002006140 active site 985002006141 P-loop; other site 985002006142 phosphorylation site [posttranslational modification] 985002006143 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 985002006144 methionine cluster; other site 985002006145 active site 985002006146 phosphorylation site [posttranslational modification] 985002006147 metal binding site [ion binding]; metal-binding site 985002006148 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; cl09108 985002006149 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 985002006150 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 985002006151 putative substrate binding site [chemical binding]; other site 985002006152 putative ATP binding site [chemical binding]; other site 985002006153 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 985002006154 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 985002006155 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 985002006156 Helix-turn-helix domains; Region: HTH; cl00088 985002006157 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 985002006158 NAD-dependent deacetylase; Provisional; Region: PRK00481 985002006159 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 985002006160 NAD+ binding site [chemical binding]; other site 985002006161 substrate binding site [chemical binding]; other site 985002006162 putative Zn binding site [ion binding]; other site 985002006163 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 985002006164 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985002006165 active site 985002006166 catalytic tetrad [active] 985002006167 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 985002006168 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985002006169 DNA binding residues [nucleotide binding] 985002006170 putative dimer interface [polypeptide binding]; other site 985002006171 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 985002006172 substrate binding site [chemical binding]; other site 985002006173 catalytic residues [active] 985002006174 Predicted transcriptional regulator [Transcription]; Region: COG2378 985002006175 Helix-turn-helix domains; Region: HTH; cl00088 985002006176 WYL domain; Region: WYL; cl14852 985002006177 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 985002006178 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 985002006179 conserved cys residue [active] 985002006180 MAP domain; Region: MAP; pfam03642 985002006181 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 985002006182 acetolactate synthase; Reviewed; Region: PRK08617 985002006183 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 985002006184 PYR/PP interface [polypeptide binding]; other site 985002006185 dimer interface [polypeptide binding]; other site 985002006186 TPP binding site [chemical binding]; other site 985002006187 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 985002006188 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 985002006189 TPP-binding site [chemical binding]; other site 985002006190 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 985002006191 Family description; Region: UvrD_C_2; cl15862 985002006192 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 985002006193 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002006194 Walker A/P-loop; other site 985002006195 ATP binding site [chemical binding]; other site 985002006196 hypothetical protein; Provisional; Region: PRK10281 985002006197 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 985002006198 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 985002006199 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 985002006200 23S rRNA interface [nucleotide binding]; other site 985002006201 L3 interface [polypeptide binding]; other site 985002006202 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 985002006203 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 985002006204 dimerization interface 3.5A [polypeptide binding]; other site 985002006205 active site 985002006206 Cobalt transport protein; Region: CbiQ; cl00463 985002006207 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13646 985002006208 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 985002006209 Walker A/P-loop; other site 985002006210 ATP binding site [chemical binding]; other site 985002006211 Q-loop/lid; other site 985002006212 ABC transporter signature motif; other site 985002006213 Walker B; other site 985002006214 D-loop; other site 985002006215 H-loop/switch region; other site 985002006216 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13648 985002006217 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 985002006218 Walker A/P-loop; other site 985002006219 ATP binding site [chemical binding]; other site 985002006220 Q-loop/lid; other site 985002006221 ABC transporter signature motif; other site 985002006222 Walker B; other site 985002006223 D-loop; other site 985002006224 H-loop/switch region; other site 985002006225 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 985002006226 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 985002006227 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 985002006228 alphaNTD homodimer interface [polypeptide binding]; other site 985002006229 alphaNTD - beta interaction site [polypeptide binding]; other site 985002006230 alphaNTD - beta' interaction site [polypeptide binding]; other site 985002006231 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 985002006232 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 985002006233 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 985002006234 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 985002006235 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 985002006236 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 985002006237 rRNA binding site [nucleotide binding]; other site 985002006238 predicted 30S ribosome binding site; other site 985002006239 adenylate kinase; Reviewed; Region: adk; PRK00279 985002006240 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 985002006241 AMP-binding site [chemical binding]; other site 985002006242 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 985002006243 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 985002006244 SecY translocase; Region: SecY; pfam00344 985002006245 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 985002006246 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 985002006247 23S rRNA binding site [nucleotide binding]; other site 985002006248 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 985002006249 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 985002006250 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 985002006251 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 985002006252 5S rRNA interface [nucleotide binding]; other site 985002006253 L27 interface [polypeptide binding]; other site 985002006254 23S rRNA interface [nucleotide binding]; other site 985002006255 L5 interface [polypeptide binding]; other site 985002006256 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 985002006257 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 985002006258 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 985002006259 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 985002006260 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 985002006261 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 985002006262 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 985002006263 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 985002006264 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 985002006265 KOW motif; Region: KOW; cl00354 985002006266 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 985002006267 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 985002006268 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 985002006269 23S rRNA interface [nucleotide binding]; other site 985002006270 putative translocon interaction site; other site 985002006271 signal recognition particle (SRP54) interaction site; other site 985002006272 L23 interface [polypeptide binding]; other site 985002006273 trigger factor interaction site; other site 985002006274 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 985002006275 23S rRNA interface [nucleotide binding]; other site 985002006276 5S rRNA interface [nucleotide binding]; other site 985002006277 putative antibiotic binding site [chemical binding]; other site 985002006278 L25 interface [polypeptide binding]; other site 985002006279 L27 interface [polypeptide binding]; other site 985002006280 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 985002006281 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 985002006282 G-X-X-G motif; other site 985002006283 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 985002006284 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 985002006285 putative translocon binding site; other site 985002006286 protein-rRNA interface [nucleotide binding]; other site 985002006287 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 985002006288 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 985002006289 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 985002006290 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 985002006291 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 985002006292 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 985002006293 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 985002006294 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 985002006295 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 985002006296 DNA topoisomerase III; Provisional; Region: PRK07726 985002006297 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 985002006298 active site 985002006299 putative interdomain interaction site [polypeptide binding]; other site 985002006300 putative metal-binding site [ion binding]; other site 985002006301 putative nucleotide binding site [chemical binding]; other site 985002006302 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 985002006303 domain I; other site 985002006304 DNA binding groove [nucleotide binding] 985002006305 phosphate binding site [ion binding]; other site 985002006306 domain II; other site 985002006307 domain III; other site 985002006308 nucleotide binding site [chemical binding]; other site 985002006309 catalytic site [active] 985002006310 domain IV; other site 985002006311 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 985002006312 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002006313 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 985002006314 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 985002006315 Membrane transport protein; Region: Mem_trans; cl09117 985002006316 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 985002006317 Protein export membrane protein; Region: SecD_SecF; cl14618 985002006318 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002006319 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 985002006320 Helix-turn-helix domains; Region: HTH; cl00088 985002006321 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 985002006322 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985002006323 putative substrate translocation pore; other site 985002006324 Helix-turn-helix domains; Region: HTH; cl00088 985002006325 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 985002006326 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 985002006327 FeS/SAM binding site; other site 985002006328 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 985002006329 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 985002006330 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 985002006331 GTP binding site; other site 985002006332 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 985002006333 MoaE interaction surface [polypeptide binding]; other site 985002006334 MoeB interaction surface [polypeptide binding]; other site 985002006335 thiocarboxylated glycine; other site 985002006336 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 985002006337 MoaE homodimer interface [polypeptide binding]; other site 985002006338 MoaD interaction [polypeptide binding]; other site 985002006339 active site residues [active] 985002006340 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002006341 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 985002006342 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 985002006343 dimer interface [polypeptide binding]; other site 985002006344 putative functional site; other site 985002006345 putative MPT binding site; other site 985002006346 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 985002006347 trimer interface [polypeptide binding]; other site 985002006348 dimer interface [polypeptide binding]; other site 985002006349 putative active site [active] 985002006350 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 985002006351 MPT binding site; other site 985002006352 trimer interface [polypeptide binding]; other site 985002006353 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 985002006354 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 985002006355 ATP binding site [chemical binding]; other site 985002006356 substrate interface [chemical binding]; other site 985002006357 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002006358 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 985002006359 Walker A/P-loop; other site 985002006360 ATP binding site [chemical binding]; other site 985002006361 Q-loop/lid; other site 985002006362 ABC transporter signature motif; other site 985002006363 Walker B; other site 985002006364 D-loop; other site 985002006365 H-loop/switch region; other site 985002006366 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 985002006367 dimer interface [polypeptide binding]; other site 985002006368 conserved gate region; other site 985002006369 putative PBP binding loops; other site 985002006370 ABC-ATPase subunit interface; other site 985002006371 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 985002006372 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 985002006373 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 985002006374 Predicted acetyltransferase [General function prediction only]; Region: COG3393 985002006375 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002006376 Coenzyme A binding pocket [chemical binding]; other site 985002006377 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 985002006378 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 985002006379 active site 985002006380 dimerization interface [polypeptide binding]; other site 985002006381 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 985002006382 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 985002006383 intersubunit interface [polypeptide binding]; other site 985002006384 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 985002006385 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 985002006386 Urea transporter; Region: UT; cl01829 985002006387 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 985002006388 alpha-gamma subunit interface [polypeptide binding]; other site 985002006389 beta-gamma subunit interface [polypeptide binding]; other site 985002006390 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 985002006391 gamma-beta subunit interface [polypeptide binding]; other site 985002006392 alpha-beta subunit interface [polypeptide binding]; other site 985002006393 urease subunit alpha; Reviewed; Region: ureC; PRK13207 985002006394 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 985002006395 subunit interactions [polypeptide binding]; other site 985002006396 active site 985002006397 flap region; other site 985002006398 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 985002006399 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 985002006400 dimer interface [polypeptide binding]; other site 985002006401 catalytic residues [active] 985002006402 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 985002006403 UreF; Region: UreF; pfam01730 985002006404 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002006405 UreD urease accessory protein; Region: UreD; cl00530 985002006406 Helix-turn-helix domains; Region: HTH; cl00088 985002006407 Helix-turn-helix domains; Region: HTH; cl00088 985002006408 Helix-turn-helix domains; Region: HTH; cl00088 985002006409 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985002006410 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985002006411 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985002006412 NlpC/P60 family; Region: NLPC_P60; cl11438 985002006413 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 985002006414 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 985002006415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002006416 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 985002006417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296; cl15800 985002006418 NlpC/P60 family; Region: NLPC_P60; cl11438 985002006419 glyoxylate reductase; Reviewed; Region: PRK13243 985002006420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002006421 hypothetical protein; Provisional; Region: PRK06753 985002006422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002006423 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 985002006424 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 985002006425 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 985002006426 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 985002006427 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 985002006428 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 985002006429 4Fe-4S binding domain; Region: Fer4; cl02805 985002006430 4Fe-4S binding domain; Region: Fer4; cl02805 985002006431 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 985002006432 [4Fe-4S] binding site [ion binding]; other site 985002006433 molybdopterin cofactor binding site; other site 985002006434 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 985002006435 molybdopterin cofactor binding site; other site 985002006436 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 985002006437 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 985002006438 active site 985002006439 Predicted transcriptional regulator [Transcription]; Region: COG2378 985002006440 Helix-turn-helix domains; Region: HTH; cl00088 985002006441 CAAX protease self-immunity; Region: Abi; cl00558 985002006442 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985002006443 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 985002006444 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 985002006445 putative active site [active] 985002006446 putative transport protein YifK; Provisional; Region: PRK10746 985002006447 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 985002006448 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 985002006449 active site 985002006450 motif I; other site 985002006451 motif II; other site 985002006452 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 985002006453 Membrane transport protein; Region: Mem_trans; cl09117 985002006454 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 985002006455 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002006456 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 985002006457 active site turn [active] 985002006458 phosphorylation site [posttranslational modification] 985002006459 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985002006460 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 985002006461 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 985002006462 putative active site [active] 985002006463 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 985002006464 putative hydrophobic ligand binding site [chemical binding]; other site 985002006465 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 985002006466 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 985002006467 oxidoreductase; Provisional; Region: PRK07985 985002006468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002006469 NAD(P) binding site [chemical binding]; other site 985002006470 active site 985002006471 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 985002006472 amidohydrolase; Region: amidohydrolases; TIGR01891 985002006473 metal binding site [ion binding]; metal-binding site 985002006474 dimer interface [polypeptide binding]; other site 985002006475 imidazolonepropionase; Validated; Region: PRK09356 985002006476 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 985002006477 active site 985002006478 urocanate hydratase; Provisional; Region: PRK05414 985002006479 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985002006480 Helix-turn-helix domains; Region: HTH; cl00088 985002006481 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 985002006482 dimerization interface [polypeptide binding]; other site 985002006483 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 985002006484 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985002006485 active site 985002006486 metal binding site [ion binding]; metal-binding site 985002006487 Arginase family; Region: Arginase; cl00306 985002006488 CAAX protease self-immunity; Region: Abi; cl00558 985002006489 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 985002006490 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985002006491 active site 985002006492 dimer interface [polypeptide binding]; other site 985002006493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 985002006494 MOSC domain; Region: MOSC; pfam03473 985002006495 3-alpha domain; Region: 3-alpha; pfam03475 985002006496 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 985002006497 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 985002006498 active site 985002006499 catalytic residues [active] 985002006500 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 985002006501 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 985002006502 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 985002006503 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 985002006504 Walker A/P-loop; other site 985002006505 ATP binding site [chemical binding]; other site 985002006506 Q-loop/lid; other site 985002006507 ABC transporter signature motif; other site 985002006508 Walker B; other site 985002006509 D-loop; other site 985002006510 H-loop/switch region; other site 985002006511 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 985002006512 Protein of unknown function (DUF805); Region: DUF805; cl01224 985002006513 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 985002006514 active site 985002006515 DNA binding site [nucleotide binding] 985002006516 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 985002006517 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 985002006518 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 985002006519 homotetramer interface [polypeptide binding]; other site 985002006520 FMN binding site [chemical binding]; other site 985002006521 homodimer contacts [polypeptide binding]; other site 985002006522 putative active site [active] 985002006523 putative substrate binding site [chemical binding]; other site 985002006524 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 985002006525 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 985002006526 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 985002006527 active site 985002006528 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 985002006529 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; cl12031 985002006530 DDE superfamily endonuclease; Region: DDE_4; cl15789 985002006531 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 985002006532 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985002006533 putative substrate translocation pore; other site 985002006534 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 985002006535 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 985002006536 E3 interaction surface; other site 985002006537 lipoyl attachment site [posttranslational modification]; other site 985002006538 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 985002006539 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 985002006540 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 985002006541 putative substrate translocation pore; other site 985002006542 Predicted membrane protein [Function unknown]; Region: COG4640 985002006543 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 985002006544 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985002006545 Helix-turn-helix domains; Region: HTH; cl00088 985002006546 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 985002006547 putative active site [active] 985002006548 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985002006549 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 985002006550 Walker A/P-loop; other site 985002006551 ATP binding site [chemical binding]; other site 985002006552 Q-loop/lid; other site 985002006553 ABC transporter signature motif; other site 985002006554 Walker B; other site 985002006555 D-loop; other site 985002006556 H-loop/switch region; other site 985002006557 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 985002006558 FtsX-like permease family; Region: FtsX; cl15850 985002006559 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985002006560 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 985002006561 active site 985002006562 phosphorylation site [posttranslational modification] 985002006563 intermolecular recognition site; other site 985002006564 dimerization interface [polypeptide binding]; other site 985002006565 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 985002006566 DNA binding site [nucleotide binding] 985002006567 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 985002006568 dimerization interface [polypeptide binding]; other site 985002006569 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 985002006570 dimer interface [polypeptide binding]; other site 985002006571 phosphorylation site [posttranslational modification] 985002006572 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 985002006573 ATP binding site [chemical binding]; other site 985002006574 Mg2+ binding site [ion binding]; other site 985002006575 G-X-G motif; other site 985002006576 LytTr DNA-binding domain; Region: LytTR; cl04498 985002006577 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 985002006578 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985002006579 Helix-turn-helix domains; Region: HTH; cl00088 985002006580 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 985002006581 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 985002006582 Walker A/P-loop; other site 985002006583 ATP binding site [chemical binding]; other site 985002006584 Q-loop/lid; other site 985002006585 ABC transporter signature motif; other site 985002006586 Walker B; other site 985002006587 D-loop; other site 985002006588 H-loop/switch region; other site 985002006589 ABC-2 type transporter; Region: ABC2_membrane; cl11417 985002006590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002006591 Predicted dehydrogenase [General function prediction only]; Region: COG0579 985002006592 L-lactate permease; Region: Lactate_perm; cl00701 985002006593 glycolate transporter; Provisional; Region: PRK09695 985002006594 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 985002006595 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985002006596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002006597 Coenzyme A binding pocket [chemical binding]; other site 985002006598 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 985002006599 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 985002006600 NAD(P) binding site [chemical binding]; other site 985002006601 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985002006602 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002006603 Coenzyme A binding pocket [chemical binding]; other site 985002006604 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 985002006605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002006606 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985002006607 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 985002006608 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 985002006609 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 985002006610 ABC-2 type transporter; Region: ABC2_membrane; cl11417 985002006611 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 985002006612 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 985002006613 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 985002006614 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 985002006615 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 985002006616 active site turn [active] 985002006617 phosphorylation site [posttranslational modification] 985002006618 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002006619 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 985002006620 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985002006621 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985002006622 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985002006623 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 985002006624 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 985002006625 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 985002006626 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 985002006627 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 985002006628 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985002006629 Helix-turn-helix domains; Region: HTH; cl00088 985002006630 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 985002006631 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 985002006632 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 985002006633 putative substrate translocation pore; other site 985002006634 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 985002006635 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 985002006636 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985002006637 DNA binding residues [nucleotide binding] 985002006638 dimer interface [polypeptide binding]; other site 985002006639 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 985002006640 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985002006641 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 985002006642 active site 985002006643 phosphorylation site [posttranslational modification] 985002006644 intermolecular recognition site; other site 985002006645 dimerization interface [polypeptide binding]; other site 985002006646 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 985002006647 DNA binding residues [nucleotide binding] 985002006648 dimerization interface [polypeptide binding]; other site 985002006649 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985002006650 Histidine kinase; Region: HisKA_3; pfam07730 985002006651 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 985002006652 ATP binding site [chemical binding]; other site 985002006653 Mg2+ binding site [ion binding]; other site 985002006654 G-X-G motif; other site 985002006655 GAF domain; Region: GAF; cl15785 985002006656 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 985002006657 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 985002006658 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 985002006659 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 985002006660 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 985002006661 [4Fe-4S] binding site [ion binding]; other site 985002006662 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 985002006663 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 985002006664 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 985002006665 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 985002006666 molybdopterin cofactor binding site; other site 985002006667 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 985002006668 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 985002006669 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 985002006670 [2Fe-2S] cluster binding site [ion binding]; other site 985002006671 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 985002006672 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985002006673 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 985002006674 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 985002006675 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 985002006676 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 985002006677 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 985002006678 putative active site [active] 985002006679 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 985002006680 active site 985002006681 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985002006682 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002006683 Coenzyme A binding pocket [chemical binding]; other site 985002006684 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 985002006685 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 985002006686 putative hydrophobic ligand binding site [chemical binding]; other site 985002006687 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 985002006688 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 985002006689 intersubunit interface [polypeptide binding]; other site 985002006690 YodA lipocalin-like domain; Region: YodA; cl01365 985002006691 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 985002006692 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 985002006693 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 985002006694 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002006695 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985002006696 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 985002006697 Walker A/P-loop; other site 985002006698 ATP binding site [chemical binding]; other site 985002006699 Q-loop/lid; other site 985002006700 ABC transporter signature motif; other site 985002006701 Walker B; other site 985002006702 D-loop; other site 985002006703 H-loop/switch region; other site 985002006704 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 985002006705 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 985002006706 dimer interface [polypeptide binding]; other site 985002006707 conserved gate region; other site 985002006708 putative PBP binding loops; other site 985002006709 ABC-ATPase subunit interface; other site 985002006710 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985002006711 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 985002006712 substrate binding pocket [chemical binding]; other site 985002006713 membrane-bound complex binding site; other site 985002006714 hinge residues; other site 985002006715 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 985002006716 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985002006717 putative substrate translocation pore; other site 985002006718 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 985002006719 catalytic core [active] 985002006720 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 985002006721 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 985002006722 Cation efflux family; Region: Cation_efflux; cl00316 985002006723 B domain; Region: B; pfam02216 985002006724 B domain; Region: B; pfam02216 985002006725 C3 binding domain 4 of IgG-bind protein SBI; Region: Sbi-IV; pfam11621 985002006726 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 985002006727 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 985002006728 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 985002006729 6-carboxyhexanoate--CoA ligase; Region: BioW; cl00625 985002006730 Pimeloyl-CoA synthetase [Coenzyme metabolism]; Region: BioW; COG1424 985002006731 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 985002006732 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 985002006733 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985002006734 catalytic residue [active] 985002006735 biotin synthase; Validated; Region: PRK06256 985002006736 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 985002006737 FeS/SAM binding site; other site 985002006738 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 985002006739 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 985002006740 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 985002006741 inhibitor-cofactor binding pocket; inhibition site 985002006742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002006743 catalytic residue [active] 985002006744 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002006745 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 985002006746 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 985002006747 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 985002006748 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 985002006749 Walker A/P-loop; other site 985002006750 ATP binding site [chemical binding]; other site 985002006751 Q-loop/lid; other site 985002006752 ABC transporter signature motif; other site 985002006753 Walker B; other site 985002006754 D-loop; other site 985002006755 H-loop/switch region; other site 985002006756 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985002006757 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 985002006758 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002006759 Walker A/P-loop; other site 985002006760 ATP binding site [chemical binding]; other site 985002006761 Q-loop/lid; other site 985002006762 ABC transporter signature motif; other site 985002006763 Walker B; other site 985002006764 D-loop; other site 985002006765 H-loop/switch region; other site 985002006766 GtrA-like protein; Region: GtrA; cl00971 985002006767 Glycerate kinase family; Region: Gly_kinase; cl00841 985002006768 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 985002006769 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 985002006770 putative substrate translocation pore; other site 985002006771 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 985002006772 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). The cleavage...; Region: Peptidase_C39_like; cl00296 985002006773 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 985002006774 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 985002006775 active site 985002006776 metal binding site [ion binding]; metal-binding site 985002006777 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 985002006778 Spore germination protein; Region: Spore_permease; cl15802 985002006779 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 985002006780 Amino acid permease; Region: AA_permease_2; pfam13520 985002006781 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 985002006782 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 985002006783 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 985002006784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002006785 NAD(P) binding site [chemical binding]; other site 985002006786 active site 985002006787 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 985002006788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002006789 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 985002006790 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 985002006791 putative substrate translocation pore; other site 985002006792 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 985002006793 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 985002006794 dimer interface [polypeptide binding]; other site 985002006795 conserved gate region; other site 985002006796 ABC-ATPase subunit interface; other site 985002006797 NMT1-like family; Region: NMT1_2; cl15260 985002006798 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 985002006799 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 985002006800 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 985002006801 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 985002006802 Walker A/P-loop; other site 985002006803 ATP binding site [chemical binding]; other site 985002006804 Q-loop/lid; other site 985002006805 ABC transporter signature motif; other site 985002006806 Walker B; other site 985002006807 D-loop; other site 985002006808 H-loop/switch region; other site 985002006809 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 985002006810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 985002006811 Protein of unknown function (DUF419); Region: DUF419; cl15265 985002006812 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 985002006813 amino acid transporter; Region: 2A0306; TIGR00909 985002006814 Spore germination protein; Region: Spore_permease; cl15802 985002006815 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 985002006816 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; cl12031 985002006817 substrate binding pocket [chemical binding]; other site 985002006818 catalytic triad [active] 985002006819 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 985002006820 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 985002006821 putative substrate translocation pore; other site 985002006822 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 985002006823 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 985002006824 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 985002006825 Walker A/P-loop; other site 985002006826 ATP binding site [chemical binding]; other site 985002006827 Q-loop/lid; other site 985002006828 ABC transporter signature motif; other site 985002006829 Walker B; other site 985002006830 D-loop; other site 985002006831 H-loop/switch region; other site 985002006832 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 985002006833 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 985002006834 oligomer interface [polypeptide binding]; other site 985002006835 active site 985002006836 metal binding site [ion binding]; metal-binding site 985002006837 Protein of unknown function (DUF1307); Region: DUF1307; cl01981 985002006838 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 985002006839 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 985002006840 active site 985002006841 FMN binding site [chemical binding]; other site 985002006842 substrate binding site [chemical binding]; other site 985002006843 3Fe-4S cluster binding site [ion binding]; other site 985002006844 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 985002006845 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985002006846 putative substrate translocation pore; other site 985002006847 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985002006848 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 985002006849 Walker A/P-loop; other site 985002006850 ATP binding site [chemical binding]; other site 985002006851 Q-loop/lid; other site 985002006852 ABC transporter signature motif; other site 985002006853 Walker B; other site 985002006854 D-loop; other site 985002006855 H-loop/switch region; other site 985002006856 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 985002006857 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 985002006858 Walker A/P-loop; other site 985002006859 ATP binding site [chemical binding]; other site 985002006860 Q-loop/lid; other site 985002006861 ABC transporter signature motif; other site 985002006862 Walker B; other site 985002006863 D-loop; other site 985002006864 H-loop/switch region; other site 985002006865 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985002006866 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 985002006867 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 985002006868 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 985002006869 dimer interface [polypeptide binding]; other site 985002006870 conserved gate region; other site 985002006871 putative PBP binding loops; other site 985002006872 ABC-ATPase subunit interface; other site 985002006873 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985002006874 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 985002006875 dimer interface [polypeptide binding]; other site 985002006876 conserved gate region; other site 985002006877 putative PBP binding loops; other site 985002006878 ABC-ATPase subunit interface; other site 985002006879 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 985002006880 substrate binding site [chemical binding]; other site 985002006881 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 985002006882 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 985002006883 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 985002006884 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 985002006885 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 985002006886 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002006887 short chain dehydrogenase; Validated; Region: PRK08589 985002006888 classical (c) SDRs; Region: SDR_c; cd05233 985002006889 NAD(P) binding site [chemical binding]; other site 985002006890 active site 985002006891 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 985002006892 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 985002006893 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 985002006894 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 985002006895 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 985002006896 classical (c) SDRs; Region: SDR_c; cd05233 985002006897 NAD(P) binding site [chemical binding]; other site 985002006898 active site 985002006899 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 985002006900 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 becoming...; Region: Lipase; cl14883 985002006901 nucleophilic elbow; other site 985002006902 catalytic triad; other site 985002006903 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002006904 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002006905 Protein of unknown function, DUF576; Region: DUF576; cl04553 985002006906 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 985002006907 PLD-like domain; Region: PLDc_2; pfam13091 985002006908 putative homodimer interface [polypeptide binding]; other site 985002006909 putative active site [active] 985002006910 catalytic site [active] 985002006911 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 985002006912 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 985002006913 ATP binding site [chemical binding]; other site 985002006914 putative Mg++ binding site [ion binding]; other site 985002006915 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 985002006916 nucleotide binding region [chemical binding]; other site 985002006917 ATP-binding site [chemical binding]; other site 985002006918 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 985002006919 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 985002006920 active site 985002006921 8-oxo-dGMP binding site [chemical binding]; other site 985002006922 nudix motif; other site 985002006923 metal binding site [ion binding]; metal-binding site 985002006924 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 985002006925 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 985002006926 active site 985002006927 substrate binding site [chemical binding]; other site 985002006928 metal binding site [ion binding]; metal-binding site 985002006929 H+ Antiporter protein; Region: 2A0121; TIGR00900 985002006930 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 985002006931 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002006932 G5 domain; Region: G5; pfam07501 985002006933 G5 domain; Region: G5; pfam07501 985002006934 G5 domain; Region: G5; pfam07501 985002006935 G5 domain; Region: G5; pfam07501 985002006936 G5 domain; Region: G5; pfam07501 985002006937 G5 domain; Region: G5; pfam07501 985002006938 G5 domain; Region: G5; pfam07501 985002006939 G5 domain; Region: G5; pfam07501 985002006940 G5 domain; Region: G5; pfam07501 985002006941 Gram positive anchor; Region: Gram_pos_anchor; cl15427 985002006942 Helix-turn-helix domains; Region: HTH; cl00088 985002006943 Helix-turn-helix domains; Region: HTH; cl00088 985002006944 Helix-turn-helix domains; Region: HTH; cl00088 985002006945 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 985002006946 active site 985002006947 tetramer interface; other site 985002006948 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002006949 heme uptake protein IsdB; Region: IsdB; TIGR03657 985002006950 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985002006951 Fibronectin binding repeat; Region: Fn_bind; pfam02986 985002006952 Gram positive anchor; Region: Gram_pos_anchor; cl15427 985002006953 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002006954 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985002006955 Fibronectin binding repeat; Region: Fn_bind; pfam02986 985002006956 GntP family permease; Region: GntP_permease; pfam02447 985002006957 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 985002006958 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 985002006959 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 985002006960 N- and C-terminal domain interface [polypeptide binding]; other site 985002006961 putative active site [active] 985002006962 catalytic site [active] 985002006963 metal binding site [ion binding]; metal-binding site 985002006964 carbohydrate binding site [chemical binding]; other site 985002006965 ATP binding site [chemical binding]; other site 985002006966 Transcriptional regulators [Transcription]; Region: GntR; COG1802 985002006967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985002006968 DNA-binding site [nucleotide binding]; DNA binding site 985002006969 FCD domain; Region: FCD; cl11656 985002006970 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 985002006971 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985002006972 DNA binding residues [nucleotide binding] 985002006973 dimer interface [polypeptide binding]; other site 985002006974 CpXC protein; Region: CpXC; pfam14353 985002006975 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 985002006976 synthetase active site [active] 985002006977 NTP binding site [chemical binding]; other site 985002006978 metal binding site [ion binding]; metal-binding site 985002006979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 985002006980 Predicted membrane protein [Function unknown]; Region: COG1289 985002006981 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 985002006982 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 985002006983 D-galactonate transporter; Region: 2A0114; TIGR00893 985002006984 putative substrate translocation pore; other site 985002006985 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 985002006986 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 985002006987 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985002006988 putative substrate translocation pore; other site 985002006989 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985002006990 Helix-turn-helix domains; Region: HTH; cl00088 985002006991 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002006992 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 985002006993 Walker A/P-loop; other site 985002006994 ATP binding site [chemical binding]; other site 985002006995 Q-loop/lid; other site 985002006996 ABC transporter signature motif; other site 985002006997 Walker B; other site 985002006998 D-loop; other site 985002006999 H-loop/switch region; other site 985002007000 ABC-2 type transporter; Region: ABC2_membrane; cl11417 985002007001 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 985002007002 Uncharacterized membrane protein [Function unknown]; Region: COG3949 985002007003 Predicted esterase [General function prediction only]; Region: COG0400 985002007004 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; cl12031 985002007005 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 985002007006 Zn binding site [ion binding]; other site 985002007007 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 985002007008 Zn binding site [ion binding]; other site 985002007009 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985002007010 Helix-turn-helix domains; Region: HTH; cl00088 985002007011 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 985002007012 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 985002007013 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 985002007014 putative metal binding site [ion binding]; other site 985002007015 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 985002007016 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 985002007017 dimer interface [polypeptide binding]; other site 985002007018 FMN binding site [chemical binding]; other site 985002007019 D-lactate dehydrogenase; Provisional; Region: PRK12480 985002007020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002007021 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 985002007022 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985002007023 active site 985002007024 motif I; other site 985002007025 motif II; other site 985002007026 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 985002007027 active site 985002007028 catalytic site [active] 985002007029 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 985002007030 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002007031 Coenzyme A binding pocket [chemical binding]; other site 985002007032 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 985002007033 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 985002007034 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 985002007035 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 985002007036 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002007037 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 985002007038 EamA-like transporter family; Region: EamA; cl01037 985002007039 EamA-like transporter family; Region: EamA; cl01037 985002007040 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 985002007041 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; cl12031 985002007042 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 985002007043 catalytic residues [active] 985002007044 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 985002007045 active site 985002007046 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002007047 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 985002007048 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 985002007049 active site turn [active] 985002007050 phosphorylation site [posttranslational modification] 985002007051 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 985002007052 HPr interaction site; other site 985002007053 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985002007054 active site 985002007055 phosphorylation site [posttranslational modification] 985002007056 pyruvate oxidase; Provisional; Region: PRK08611 985002007057 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 985002007058 PYR/PP interface [polypeptide binding]; other site 985002007059 tetramer interface [polypeptide binding]; other site 985002007060 dimer interface [polypeptide binding]; other site 985002007061 TPP binding site [chemical binding]; other site 985002007062 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 985002007063 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 985002007064 TPP-binding site [chemical binding]; other site 985002007065 LrgB-like family; Region: LrgB; cl00596 985002007066 LrgA family; Region: LrgA; cl00608 985002007067 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985002007068 Helix-turn-helix domains; Region: HTH; cl00088 985002007069 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 985002007070 putative dimerization interface [polypeptide binding]; other site 985002007071 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 985002007072 NlpC/P60 family; Region: NLPC_P60; cl11438 985002007073 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 985002007074 homodimer interface [polypeptide binding]; other site 985002007075 catalytic residues [active] 985002007076 NAD binding site [chemical binding]; other site 985002007077 substrate binding pocket [chemical binding]; other site 985002007078 flexible flap; other site 985002007079 '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 characterized by the...; Region: init_cond_enzymes; cd00827 985002007080 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 985002007081 dimer interface [polypeptide binding]; other site 985002007082 active site 985002007083 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 985002007084 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 985002007085 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 985002007086 DNA binding site [nucleotide binding] 985002007087 active site 985002007088 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 985002007089 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 985002007090 Walker A motif; other site 985002007091 ATP binding site [chemical binding]; other site 985002007092 Walker B motif; other site 985002007093 arginine finger; other site 985002007094 UvrB/uvrC motif; Region: UVR; pfam02151 985002007095 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 985002007096 Walker A motif; other site 985002007097 ATP binding site [chemical binding]; other site 985002007098 Walker B motif; other site 985002007099 arginine finger; other site 985002007100 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 985002007101 Virus attachment protein p12 family; Region: P12; pfam12669 985002007102 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 985002007103 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 985002007104 G1 box; other site 985002007105 GTP/Mg2+ binding site [chemical binding]; other site 985002007106 Switch I region; other site 985002007107 G2 box; other site 985002007108 G3 box; other site 985002007109 Switch II region; other site 985002007110 G4 box; other site 985002007111 G5 box; other site 985002007112 Nucleoside recognition; Region: Gate; cl00486 985002007113 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 985002007114 Nucleoside recognition; Region: Gate; cl00486 985002007115 FeoA domain; Region: FeoA; cl00838 985002007116 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 985002007117 Protein export membrane protein; Region: SecD_SecF; cl14618 985002007118 Ammonia monooxygenase; Region: AMO; cl03602 985002007119 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985002007120 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 985002007121 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 985002007122 Glutamate binding site [chemical binding]; other site 985002007123 homodimer interface [polypeptide binding]; other site 985002007124 NAD binding site [chemical binding]; other site 985002007125 catalytic residues [active] 985002007126 maltose O-acetyltransferase; Provisional; Region: PRK10092 985002007127 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 985002007128 active site 985002007129 substrate binding site [chemical binding]; other site 985002007130 trimer interface [polypeptide binding]; other site 985002007131 CoA binding site [chemical binding]; other site 985002007132 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 985002007133 metal-binding site [ion binding] 985002007134 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 985002007135 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 985002007136 metal-binding site [ion binding] 985002007137 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 985002007138 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 985002007139 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 985002007140 metal-binding site [ion binding] 985002007141 D-lactate dehydrogenase; Validated; Region: PRK08605 985002007142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002007143 transaminase; Reviewed; Region: PRK08068 985002007144 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 985002007145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002007146 homodimer interface [polypeptide binding]; other site 985002007147 catalytic residue [active] 985002007148 NlpC/P60 family; Region: NLPC_P60; cl11438 985002007149 OpgC protein; Region: OpgC_C; cl00792 985002007150 Acyltransferase family; Region: Acyl_transf_3; pfam01757 985002007151 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 985002007152 catalytic triad [active] 985002007153 catalytic triad [active] 985002007154 oxyanion hole [active] 985002007155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002007156 Coenzyme A binding pocket [chemical binding]; other site 985002007157 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 985002007158 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002007159 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 985002007160 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985002007161 Helix-turn-helix domains; Region: HTH; cl00088 985002007162 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 985002007163 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 985002007164 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985002007165 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 985002007166 NmrA-like family; Region: NmrA; pfam05368 985002007167 NADP binding site [chemical binding]; other site 985002007168 active site 985002007169 regulatory binding site [polypeptide binding]; other site 985002007170 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 985002007171 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985002007172 Helix-turn-helix domains; Region: HTH; cl00088 985002007173 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 985002007174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002007175 NAD(P) binding site [chemical binding]; other site 985002007176 active site 985002007177 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 985002007178 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 985002007179 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; cl12031 985002007180 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 985002007181 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002007182 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 985002007183 ferrous iron transporter FeoB; Region: feoB; TIGR00437 985002007184 Nucleoside recognition; Region: Gate; cl00486 985002007185 Nucleoside recognition; Region: Gate; cl00486 985002007186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 985002007187 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 985002007188 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 985002007189 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 985002007190 Protein of unknown function (DUF3130; Region: DUF3130; cl12867 985002007191 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 985002007192 Phosphotransferase enzyme family; Region: APH; pfam01636 985002007193 active site 985002007194 substrate binding site [chemical binding]; other site 985002007195 ATP binding site [chemical binding]; other site 985002007196 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 985002007197 quinone interaction residues [chemical binding]; other site 985002007198 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 985002007199 active site 985002007200 catalytic residues [active] 985002007201 FMN binding site [chemical binding]; other site 985002007202 substrate binding site [chemical binding]; other site 985002007203 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 985002007204 hypothetical protein; Provisional; Region: PRK06184 985002007205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002007206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002007207 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 985002007208 dimer interface [polypeptide binding]; other site 985002007209 Predicted acyl esterases [General function prediction only]; Region: COG2936 985002007210 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 985002007211 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 985002007212 tetramerization interface [polypeptide binding]; other site 985002007213 active site 985002007214 pantoate--beta-alanine ligase; Region: panC; TIGR00018 985002007215 Pantoate-beta-alanine ligase; Region: PanC; cd00560 985002007216 active site 985002007217 ATP-binding site [chemical binding]; other site 985002007218 pantoate-binding site; other site 985002007219 HXXH motif; other site 985002007220 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 985002007221 oligomerization interface [polypeptide binding]; other site 985002007222 active site 985002007223 metal binding site [ion binding]; metal-binding site 985002007224 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 985002007225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002007226 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 985002007227 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 985002007228 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 985002007229 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 985002007230 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985002007231 NAD binding site [chemical binding]; other site 985002007232 dimer interface [polypeptide binding]; other site 985002007233 substrate binding site [chemical binding]; other site 985002007234 amino acid transporter; Region: 2A0306; TIGR00909 985002007235 Spore germination protein; Region: Spore_permease; cl15802 985002007236 4-aminobutyrate aminotransferase; Provisional; Region: PRK08593 985002007237 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 985002007238 inhibitor-cofactor binding pocket; inhibition site 985002007239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002007240 catalytic residue [active] 985002007241 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; cl09108 985002007242 catalytic residue [active] 985002007243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002007244 Predicted dehydrogenase [General function prediction only]; Region: COG0579 985002007245 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 985002007246 AMP-binding enzyme; Region: AMP-binding; cl15778 985002007247 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 985002007248 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 985002007249 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 985002007250 choline dehydrogenase; Validated; Region: PRK02106 985002007251 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 985002007252 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 985002007253 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 985002007254 tetramerization interface [polypeptide binding]; other site 985002007255 NAD(P) binding site [chemical binding]; other site 985002007256 catalytic residues [active] 985002007257 Predicted transcriptional regulators [Transcription]; Region: COG1510 985002007258 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985002007259 BCCT family transporter; Region: BCCT; cl00569 985002007260 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 985002007261 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 985002007262 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 985002007263 Class III ribonucleotide reductase; Region: RNR_III; cd01675 985002007264 effector binding site; other site 985002007265 active site 985002007266 Zn binding site [ion binding]; other site 985002007267 glycine loop; other site 985002007268 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 985002007269 Citrate transporter; Region: CitMHS; pfam03600 985002007270 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 985002007271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002007272 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 985002007273 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 985002007274 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 985002007275 FAD binding pocket [chemical binding]; other site 985002007276 FAD binding motif [chemical binding]; other site 985002007277 catalytic residues [active] 985002007278 NAD binding pocket [chemical binding]; other site 985002007279 phosphate binding motif [ion binding]; other site 985002007280 beta-alpha-beta structure motif; other site 985002007281 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 985002007282 catalytic residues [active] 985002007283 dimer interface [polypeptide binding]; other site 985002007284 FtsX-like permease family; Region: FtsX; cl15850 985002007285 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985002007286 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 985002007287 Walker A/P-loop; other site 985002007288 ATP binding site [chemical binding]; other site 985002007289 Q-loop/lid; other site 985002007290 ABC transporter signature motif; other site 985002007291 Walker B; other site 985002007292 D-loop; other site 985002007293 H-loop/switch region; other site 985002007294 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985002007295 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 985002007296 ATP binding site [chemical binding]; other site 985002007297 Mg2+ binding site [ion binding]; other site 985002007298 G-X-G motif; other site 985002007299 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985002007300 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 985002007301 active site 985002007302 phosphorylation site [posttranslational modification] 985002007303 intermolecular recognition site; other site 985002007304 dimerization interface [polypeptide binding]; other site 985002007305 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 985002007306 DNA binding site [nucleotide binding] 985002007307 DDE superfamily endonuclease; Region: DDE_4; cl15789 985002007308 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 985002007309 Helix-turn-helix domains; Region: HTH; cl00088 985002007310 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 985002007311 atypical (a) SDRs, subgroup 6; Region: SDR_a6; cd05267 985002007312 NADH(P)-binding; Region: NAD_binding_10; pfam13460 985002007313 putative NAD(P) binding site [chemical binding]; other site 985002007314 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; cl00161 985002007315 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 985002007316 classical (c) SDRs; Region: SDR_c; cd05233 985002007317 NAD(P) binding site [chemical binding]; other site 985002007318 active site 985002007319 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 985002007320 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; cl12031 985002007321 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 985002007322 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 985002007323 dimer interface [polypeptide binding]; other site 985002007324 active site 985002007325 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 985002007326 Protein of unknown function (DUF2648); Region: DUF2648; pfam10855 985002007327 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985002007328 Helix-turn-helix domains; Region: HTH; cl00088 985002007329 Predicted esterase [General function prediction only]; Region: COG0627 985002007330 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; cl12031 985002007331 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; cl12031 985002007332 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002007333 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 985002007334 Gram positive anchor; Region: Gram_pos_anchor; cl15427 985002007335 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 985002007336 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; cl00047 985002007337 Helix-turn-helix domains; Region: HTH; cl00088 985002007338 carbamate kinase; Reviewed; Region: PRK12686 985002007339 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 985002007340 putative substrate binding site [chemical binding]; other site 985002007341 nucleotide binding site [chemical binding]; other site 985002007342 nucleotide binding site [chemical binding]; other site 985002007343 homodimer interface [polypeptide binding]; other site 985002007344 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 985002007345 ornithine carbamoyltransferase; Validated; Region: PRK02102 985002007346 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 985002007347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002007348 Amidinotransferase; Region: Amidinotransf; cl12043 985002007349 Arginine repressor [Transcription]; Region: ArgR; COG1438 985002007350 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 985002007351 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 985002007352 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 985002007353 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 985002007354 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 985002007355 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 985002007356 active site 985002007357 Zn binding site [ion binding]; other site 985002007358 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985002007359 Helix-turn-helix domains; Region: HTH; cl00088 985002007360 PRD domain; Region: PRD; cl15445 985002007361 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 985002007362 active site 985002007363 P-loop; other site 985002007364 phosphorylation site [posttranslational modification] 985002007365 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 985002007366 active site 985002007367 phosphorylation site [posttranslational modification] 985002007368 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 985002007369 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 985002007370 active site 985002007371 P-loop; other site 985002007372 phosphorylation site [posttranslational modification] 985002007373 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 985002007374 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 985002007375 active site 985002007376 phosphorylation site [posttranslational modification] 985002007377 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 985002007378 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 985002007379 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 985002007380 Predicted membrane protein [Function unknown]; Region: COG1511 985002007381 ABC-2 type transporter; Region: ABC2_membrane; cl11417 985002007382 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 985002007383 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 985002007384 NlpC/P60 family; Region: NLPC_P60; cl11438 985002007385 Isochorismatase family; Region: Isochorismatase; pfam00857 985002007386 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 985002007387 catalytic triad [active] 985002007388 conserved cis-peptide bond; other site 985002007389 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 985002007390 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 985002007391 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 985002007392 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 985002007393 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 985002007394 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 985002007395 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002007396 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 985002007397 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 985002007398 nucleotide binding region [chemical binding]; other site 985002007399 ATP-binding site [chemical binding]; other site 985002007400 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 985002007401 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 985002007402 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 985002007403 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 985002007404 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12417 985002007405 SecY translocase; Region: SecY; pfam00344 985002007406 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 985002007407 legume lectins; Region: lectin_L-type; cd01951 985002007408 homotetramer interaction site [polypeptide binding]; other site 985002007409 carbohydrate binding site [chemical binding]; other site 985002007410 metal binding site [ion binding]; metal-binding site 985002007411 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 985002007412 Flavin Reductases; Region: FlaRed; cl00801 985002007413 Flavin Reductases; Region: FlaRed; cl00801 985002007414 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 985002007415 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985002007416 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985002007417 Coenzyme A binding pocket [chemical binding]; other site 985002007418 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 985002007419 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 985002007420 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 985002007421 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 985002007422 Chain length determinant protein; Region: Wzz; cl15801 985002007423 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985002007424 Helix-turn-helix domains; Region: HTH; cl00088 985002007425 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 985002007426 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 985002007427 DXD motif; other site 985002007428 intracellular adhesion protein D; Region: PIA_icaD; TIGR03932 985002007429 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 985002007430 OpgC protein; Region: OpgC_C; cl00792 985002007431 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 985002007432 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 985002007433 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 985002007434 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 985002007435 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 985002007436 metal binding site [ion binding]; metal-binding site 985002007437 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 985002007438 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 985002007439 substrate binding site [chemical binding]; other site 985002007440 glutamase interaction surface [polypeptide binding]; other site 985002007441 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 985002007442 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 985002007443 catalytic residues [active] 985002007444 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 985002007445 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 985002007446 putative active site [active] 985002007447 oxyanion strand; other site 985002007448 catalytic triad [active] 985002007449 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 985002007450 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 985002007451 putative active site pocket [active] 985002007452 4-fold oligomerization interface [polypeptide binding]; other site 985002007453 metal binding residues [ion binding]; metal-binding site 985002007454 3-fold/trimer interface [polypeptide binding]; other site 985002007455 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 985002007456 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 985002007457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985002007458 homodimer interface [polypeptide binding]; other site 985002007459 catalytic residue [active] 985002007460 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 985002007461 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 985002007462 NAD binding site [chemical binding]; other site 985002007463 dimerization interface [polypeptide binding]; other site 985002007464 product binding site; other site 985002007465 substrate binding site [chemical binding]; other site 985002007466 zinc binding site [ion binding]; other site 985002007467 catalytic residues [active] 985002007468 ATP phosphoribosyltransferase; Region: HisG; cl15266 985002007469 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 attaches...; Region: class_II_aaRS-like_core; cl00268 985002007470 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 985002007471 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 985002007472 putative active site [active] 985002007473 putative metal binding site [ion binding]; other site 985002007474 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 985002007475 Cobalt transport protein; Region: CbiQ; cl00463 985002007476 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 985002007477 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 985002007478 Walker A/P-loop; other site 985002007479 ATP binding site [chemical binding]; other site 985002007480 Q-loop/lid; other site 985002007481 ABC transporter signature motif; other site 985002007482 Walker B; other site 985002007483 D-loop; other site 985002007484 H-loop/switch region; other site 985002007485 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 985002007486 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 985002007487 Walker A/P-loop; other site 985002007488 ATP binding site [chemical binding]; other site 985002007489 Q-loop/lid; other site 985002007490 ABC transporter signature motif; other site 985002007491 Walker B; other site 985002007492 D-loop; other site 985002007493 H-loop/switch region; other site 985002007494 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 985002007495 Uncharacterized conserved protein [Function unknown]; Region: COG1912 985002007496 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 985002007497 YceI-like domain; Region: YceI; cl01001 985002007498 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 985002007499 Strictosidine synthase; Region: Str_synth; pfam03088 985002007500 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 985002007501 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 985002007502 active site residue [active] 985002007503 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 985002007504 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 985002007505 putative substrate binding pocket [chemical binding]; other site 985002007506 AC domain interface; other site 985002007507 catalytic triad [active] 985002007508 AB domain interface; other site 985002007509 interchain disulfide; other site 985002007510 hypothetical protein; Validated; Region: PRK07668 985002007511 Helix-turn-helix domains; Region: HTH; cl00088 985002007512 DinB superfamily; Region: DinB_2; pfam12867 985002007513 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 985002007514 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 985002007515 transmembrane helices; other site 985002007516 Predicted permeases [General function prediction only]; Region: RarD; COG2962 985002007517 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 985002007518 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 985002007519 High-affinity nickel-transport protein; Region: NicO; cl00964 985002007520 N-acetyltransferase; Region: Acetyltransf_2; cl00949 985002007521 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 985002007522 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985002007523 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 985002007524 Walker A/P-loop; other site 985002007525 ATP binding site [chemical binding]; other site 985002007526 Q-loop/lid; other site 985002007527 ABC transporter signature motif; other site 985002007528 Walker B; other site 985002007529 D-loop; other site 985002007530 H-loop/switch region; other site 985002007531 FtsX-like permease family; Region: FtsX; cl15850 985002007532 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 protein; Region: CSP_CDS; cd04458 985002007533 DNA-binding site [nucleotide binding]; DNA binding site 985002007534 RNA-binding motif; other site 985002007535 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 985002007536 non-specific DNA binding site [nucleotide binding]; other site 985002007537 salt bridge; other site 985002007538 sequence-specific DNA binding site [nucleotide binding]; other site 985002007539 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 985002007540 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 985002007541 ParB-like nuclease domain; Region: ParBc; cl02129 985002007542 ParB-like partition proteins; Region: parB_part; TIGR00180 985002007543 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; cl16911 985002007544 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 985002007545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985002007546 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 985002007547 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 985002007548 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 985002007549 trmE is a tRNA modification GTPase; Region: trmE; cd04164 985002007550 G1 box; other site 985002007551 GTP/Mg2+ binding site [chemical binding]; other site 985002007552 Switch I region; other site 985002007553 G2 box; other site 985002007554 Switch II region; other site 985002007555 G3 box; other site 985002007556 G4 box; other site 985002007557 G5 box; other site 985002007558 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 985002007559 Ribonuclease P; Region: Ribonuclease_P; cl00457 985002007560 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 46170007561 Probable gene remnant 46170007562 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 46170007563 Integrase core domain; Region: rve; cl01316 46170007564 Integrase core domain; Region: rve; cl01316 46170007565 Probable gene remnant 46170007566 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 46170007567 putative DNA binding site [nucleotide binding]; other site 46170007568 putative Zn2+ binding site [ion binding]; other site 46170007569 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 46170007570 Cadmium resistance transporter; Region: Cad; pfam03596 46170007571 Helix-turn-helix domains; Region: HTH; cl00088 46170007572 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 46170007573 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 46170007574 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 46170007575 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 46170007576 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 46170007577 NAD binding site [chemical binding]; other site 46170007578 homotetramer interface [polypeptide binding]; other site 46170007579 homodimer interface [polypeptide binding]; other site 46170007580 substrate binding site [chemical binding]; other site 46170007581 active site 46170007582 DDE superfamily endonuclease; Region: DDE_4; cl15789 46170007583 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 46170007584 DDE superfamily endonuclease; Region: DDE_4; cl15789 46170007585 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 46170007586 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 46170007587 putative substrate translocation pore; other site 46170007588 Helix-turn-helix domains; Region: HTH; cl00088 46170007589 QacR-like protein, C-terminal region; Region: TetR_C_5; pfam08360 46170007590 multiple promoter invertase; Provisional; Region: mpi; PRK13413 46170007591 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 46170007592 catalytic residues [active] 46170007593 catalytic nucleophile [active] 46170007594 Presynaptic Site I dimer interface [polypeptide binding]; other site 46170007595 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 46170007596 Synaptic Flat tetramer interface [polypeptide binding]; other site 46170007597 Synaptic Site I dimer interface [polypeptide binding]; other site 46170007598 DNA binding site [nucleotide binding] 46170007599 Helix-turn-helix domains; Region: HTH; cl00088 46170007600 multiple promoter invertase; Provisional; Region: mpi; PRK13413 46170007601 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 46170007602 catalytic residues [active] 46170007603 catalytic nucleophile [active] 46170007604 Presynaptic Site I dimer interface [polypeptide binding]; other site 46170007605 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 46170007606 Synaptic Flat tetramer interface [polypeptide binding]; other site 46170007607 Synaptic Site I dimer interface [polypeptide binding]; other site 46170007608 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 46170007609 DNA-binding interface [nucleotide binding]; DNA binding site 46170007610 Helix-turn-helix domains; Region: HTH; cl00088 46170007611 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 46170007612 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 46170007613 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 46170007614 beta-lactamase TEM; Provisional; Region: PRK15442 46170007615 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 46170007616 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 46170007617 putative active site [active] 46170007618 putative NTP binding site [chemical binding]; other site 46170007619 putative nucleic acid binding site [nucleotide binding]; other site